Pierrick Roger
| Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: 8651955 |
| git_last_commit_date: 2023-10-24 11:38:18 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-03-28 11:36:14 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
| 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 201/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.9.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbHmdb |
| Version: 1.9.0 |
| Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.9.0.tar.gz |
| StartedAt: 2024-03-27 20:39:11 -0400 (Wed, 27 Mar 2024) |
| EndedAt: 2024-03-27 20:40:02 -0400 (Wed, 27 Mar 2024) |
| EllapsedTime: 50.7 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
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###
### Running command:
###
### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.9.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2024-03-18 r86148)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.9.0’
* 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-3.19-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs, 2 NOTEs
See
‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
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###
### Running command:
###
### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.19-bioc/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/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-bioc/R/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) (2024-03-18 r86148) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-03-27 20:39:46.187][biodb::testContext]
biodb.INFO [2024-03-27 20:39:46.189][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:46.190][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-03-27 20:39:46.191][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:46.192][biodb::testContext]
biodb.INFO [2024-03-27 20:39:46.194][biodb::testThat]
biodb.INFO [2024-03-27 20:39:46.194][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-03-27 20:39:46.195][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:46.196][biodb::testThat]
biodb.INFO [2024-03-27 20:39:46.285][biodb::testContext]
biodb.INFO [2024-03-27 20:39:46.287][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:46.287][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-03-27 20:39:46.288][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:46.289][biodb::testContext]
biodb.INFO [2024-03-27 20:39:46.297][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-27 20:39:46.299][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-27 20:39:46.306][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:46.307][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-27 20:39:46.333][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-27 20:39:46.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.337][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-27 20:39:46.357][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-27 20:39:46.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.361][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-27 20:39:46.362][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-27 20:39:46.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.366][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-27 20:39:46.367][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-27 20:39:46.368][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-27 20:39:46.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.372][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-27 20:39:46.373][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-27 20:39:46.374][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-27 20:39:46.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.377][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-27 20:39:46.378][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-27 20:39:46.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.382][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-27 20:39:46.383][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-27 20:39:46.384][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-27 20:39:46.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.388][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-27 20:39:46.389][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-27 20:39:46.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.393][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-27 20:39:46.394][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-27 20:39:46.395][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-27 20:39:46.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.398][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-27 20:39:46.399][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-27 20:39:46.400][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-27 20:39:46.401][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-27 20:39:46.402][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-27 20:39:46.403][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-27 20:39:46.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.407][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-27 20:39:46.408][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-27 20:39:46.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.412][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-27 20:39:46.413][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-27 20:39:46.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.416][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[2024-03-27 20:39:46.417][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-27 20:39:46.418][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-27 20:39:46.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.421][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-27 20:39:46.422][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-27 20:39:46.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.426][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-27 20:39:46.427][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-27 20:39:46.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.431][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-27 20:39:46.432][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-27 20:39:46.436][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-27 20:39:46.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.439][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-27 20:39:46.440][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-27 20:39:46.441][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-27 20:39:46.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.448][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-27 20:39:46.483][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.499][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-03-27 20:39:46.500][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:46.502][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.503][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.504][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.505][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.506][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-27 20:39:46.507][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:46.513][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.514][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-27 20:39:46.515][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:46.516][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.517][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.518][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:46.518][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-27 20:39:46.518][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-27 20:39:46.518][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-27 20:39:46.518][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-27 20:39:46.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:46.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:46.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.524][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.525][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.526][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:46.527][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:46.528][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.528][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.530][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-27 20:39:46.531][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.532][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-27 20:39:46.533][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.534][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:46.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.537][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.538][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.539][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-27 20:39:46.540][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:46.541][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.542][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-27 20:39:46.543][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:46.544][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.544][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.545][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:46.545][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-27 20:39:46.545][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-27 20:39:46.545][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-27 20:39:46.545][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-27 20:39:46.546][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:46.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.549][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:46.550][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.551][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.552][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.553][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.554][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:46.554][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:46.555][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.556][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.557][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-27 20:39:46.559][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.560][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-03-27 20:39:46.561][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.562][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:46.563][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.564][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.565][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.565][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.566][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-27 20:39:46.567][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:46.568][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.569][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-27 20:39:46.570][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:46.571][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.572][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.573][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.574][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:46.575][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.577][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:46.577][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.578][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.579][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.580][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.581][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:46.582][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:46.583][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.584][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.585][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-27 20:39:46.586][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.587][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-27 20:39:46.588][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.589][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:46.590][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.591][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.592][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.593][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.594][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-27 20:39:46.595][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:46.596][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.597][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-27 20:39:46.598][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:46.599][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.600][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.600][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.601][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:46.602][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.603][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.604][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:46.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.607][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.608][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.609][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:46.609][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:46.610][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.611][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.615][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:46.616][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.621][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[2024-03-27 20:39:46.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.652][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[2024-03-27 20:39:46.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.673][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[2024-03-27 20:39:46.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.695][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-27 20:39:46.700][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-27 20:39:46.701][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-27 20:39:46.703][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-27 20:39:46.704][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-27 20:39:46.705][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-27 20:39:46.707][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-27 20:39:46.708][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-27 20:39:46.709][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-27 20:39:46.711][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-27 20:39:46.712][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-27 20:39:46.713][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-27 20:39:46.715][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-27 20:39:46.716][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-27 20:39:46.717][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-27 20:39:46.718][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-27 20:39:46.720][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-27 20:39:46.721][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-27 20:39:46.722][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-27 20:39:46.724][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-27 20:39:46.725][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-27 20:39:46.726][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-27 20:39:46.728][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-27 20:39:46.729][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-27 20:39:46.730][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-27 20:39:46.732][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-27 20:39:46.733][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-27 20:39:46.734][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-27 20:39:46.736][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-27 20:39:46.737][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-27 20:39:46.738][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-27 20:39:46.740][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-27 20:39:46.741][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-27 20:39:46.742][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-27 20:39:46.743][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-27 20:39:46.745][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-27 20:39:46.746][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-27 20:39:46.747][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-27 20:39:46.749][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-27 20:39:46.750][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-27 20:39:46.751][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-27 20:39:46.753][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-27 20:39:46.754][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-27 20:39:46.755][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-27 20:39:46.757][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-27 20:39:46.758][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-27 20:39:46.759][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-27 20:39:46.761][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-27 20:39:46.762][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-27 20:39:46.763][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-27 20:39:46.765][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-27 20:39:46.766][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-27 20:39:46.767][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-27 20:39:46.769][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-27 20:39:46.770][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-27 20:39:46.771][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-27 20:39:46.773][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-27 20:39:46.774][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-27 20:39:46.775][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-27 20:39:46.776][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-27 20:39:46.778][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-27 20:39:46.779][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-27 20:39:46.780][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-27 20:39:46.782][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-27 20:39:46.783][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-27 20:39:46.784][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-27 20:39:46.786][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-27 20:39:46.787][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-27 20:39:46.788][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-27 20:39:46.790][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-27 20:39:46.791][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-27 20:39:46.792][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-27 20:39:46.794][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-27 20:39:46.795][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-27 20:39:46.796][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-27 20:39:46.798][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-27 20:39:46.799][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-27 20:39:46.800][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-27 20:39:46.802][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-27 20:39:46.803][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-27 20:39:46.804][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-27 20:39:46.806][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-27 20:39:46.807][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-27 20:39:46.813][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-27 20:39:46.814][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-27 20:39:46.818][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:46.819][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.821][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.844][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[2024-03-27 20:39:46.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.855][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[2024-03-27 20:39:46.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.873][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[2024-03-27 20:39:46.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.891][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[2024-03-27 20:39:46.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:46.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:46.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:46.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:46.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:46.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:46.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:46.931][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[2024-03-27 20:39:46.933][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-03-27 20:39:46.942][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:46.944][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.945][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.946][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.947][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:46.948][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.949][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-03-27 20:39:46.950][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.952][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-27 20:39:46.953][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:46.954][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.955][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-03-27 20:39:46.956][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-03-27 20:39:46.957][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-03-27 20:39:46.958][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:46.959][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:46.959][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-03-27 20:39:46.959][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-03-27 20:39:46.960][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-27 20:39:46.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.962][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.962][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:46.963][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:46.964][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:46.965][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:46.966][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-03-27 20:39:46.966][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-03-27 20:39:46.967][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:46.968][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:46.969][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:46.970][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:46.975][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-03-27 20:39:46.977][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-27 20:39:46.978][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-27 20:39:46.980][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-27 20:39:46.981][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-27 20:39:47.004][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:47.006][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-03-27 20:39:47.010][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:47.014][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:47.019][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:47.020][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:47.021][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-03-27 20:39:47.022][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-03-27 20:39:47.023][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-03-27 20:39:47.023][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-03-27 20:39:47.062][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:47.063][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:47.064][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-03-27 20:39:47.065][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-03-27 20:39:47.066][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:47.082][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:47.083][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:47.084][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:47.085][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:47.087][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:47.087][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-03-27 20:39:47.096][biodb::testThat]
biodb.INFO [2024-03-27 20:39:47.097][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-03-27 20:39:47.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:47.099][biodb::testThat]
biodb.TRACE[2024-03-27 20:39:47.103][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-03-27 20:39:47.105][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:47.108][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:47.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:47.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:47.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:47.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:47.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:47.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:47.126][FUN] Functions in observer BiodbConfig: [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[2024-03-27 20:39:47.138][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.139][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.141][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.158][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.159][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.161][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.186][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.190][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.191][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.193][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.199][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.200][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.202][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.203][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.210][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.223][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.225][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.227][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.232][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.233][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.235][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.236][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.240][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.241][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.243][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.244][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.248][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.249][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.250][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.256][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.257][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.259][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.264][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.265][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.267][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:47.273][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:47.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.275][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:47.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:47.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.280][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.281][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.283][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.289][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.290][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.291][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.297][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.300][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.305][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.306][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.307][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.309][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.313][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:47.314][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:47.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.315][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.317][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:47.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:47.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.321][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:47.322][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.324][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.325][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:47.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.375][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.383][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:47.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.387][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.391][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.395][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:47.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.421][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.425][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.429][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:47.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.436][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:47.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.452][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:47.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.459][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:47.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:47.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:47.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:47.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:47.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.509][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.513][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:47.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.539][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.543][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.547][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.551][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.558][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.562][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:47.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:47.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.566][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:47.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:47.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:47.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:47.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.574][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:47.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.629][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.644][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:47.671][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-03-27 20:39:47.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-27 20:39:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-27 20:39:47.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-27 20:39:47.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-27 20:39:47.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-03-27 20:39:47.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-03-27 20:39:47.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-03-27 20:39:47.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-03-27 20:39:47.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.712][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.744][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.748][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.752][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:47.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.775][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.776][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.778][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:47.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:47.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.796][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.800][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.804][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.808][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.809][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.811][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.812][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:47.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.834][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.835][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.837][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:47.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.853][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.857][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.860][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.861][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.863][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.864][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:47.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.889][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:47.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.901][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.909][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.913][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.914][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.916][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.917][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:47.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.945][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.948][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:47.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:47.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.960][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.964][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.968][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.971][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.972][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.974][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:47.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.986][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.994][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:47.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:47.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:47.998][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:47.999][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.001][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.002][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.013][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.017][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.021][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.025][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.026][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.028][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.029][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.051][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.052][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.054][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.069][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.073][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.077][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.080][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.081][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.083][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.084][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.095][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.099][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.103][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.106][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.107][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.109][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.110][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.121][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.133][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.134][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.136][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.137][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.151][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.155][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.160][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.162][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.185][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.186][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.188][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.215][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.216][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.218][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.229][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.233][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.237][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.241][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.242][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.244][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.245][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.255][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.258][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.262][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.263][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.265][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.269][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.270][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.272][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.276][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.277][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.279][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.283][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.284][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.285][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.289][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.290][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.292][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.296][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.297][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.299][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.303][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.304][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.306][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.310][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:48.311][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:48.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.312][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.316][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.319][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.323][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.324][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.326][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.330][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.331][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.333][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.342][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.343][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.345][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.349][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.350][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.352][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.355][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.357][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.358][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.362][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.363][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.365][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.369][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.370][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.372][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.376][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.378][ef$get] fields variable is a list.
biodb.INFO [2024-03-27 20:39:48.385][biodb::testThat]
biodb.INFO [2024-03-27 20:39:48.386][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-03-27 20:39:48.386][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:48.387][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:48.400][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-03-27 20:39:48.408][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-03-27 20:39:48.412][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:48.414][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-03-27 20:39:48.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-03-27 20:39:48.417][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-27 20:39:48.419][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-03-27 20:39:48.420][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-03-27 20:39:48.442][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:48.443][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:48.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:48.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:48.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:48.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:48.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:48.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:48.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-27 20:39:48.457][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.458][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.460][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.465][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.466][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.468][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.469][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.478][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.479][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.481][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.482][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.486][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.487][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.489][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.490][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.497][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.502][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.503][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.504][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.510][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.511][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.512][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.514][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.517][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.518][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.520][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.521][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.525][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.526][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.528][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.529][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.533][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.534][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.536][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.537][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.541][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.544][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.545][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.549][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.550][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.552][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.557][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.558][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.559][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.564][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.565][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.567][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.572][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.573][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.575][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.580][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:48.581][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:48.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.583][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.584][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:48.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:48.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.588][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.591][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.596][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:48.597][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.599][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.600][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:48.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.623][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.627][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:48.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.631][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.635][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.639][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:48.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:48.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:48.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.665][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:48.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.676][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.680][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:48.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.691][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.695][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:48.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:48.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:48.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:48.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:48.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:48.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.718][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:48.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:48.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:48.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.748][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.751][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.755][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:48.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:48.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.770][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.774][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.781][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.785][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.789][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:48.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.793][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.797][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.800][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:48.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.804][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.812][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:48.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:48.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.815][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:48.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.823][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.830][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:48.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:48.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.846][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.854][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:48.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:48.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.858][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:48.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:48.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.865][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:48.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:48.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:48.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:48.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:48.896][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-03-27 20:39:48.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-03-27 20:39:48.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-03-27 20:39:48.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-03-27 20:39:48.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-03-27 20:39:48.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-03-27 20:39:48.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-03-27 20:39:48.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-27 20:39:48.915][biodb::testThat]
biodb.INFO [2024-03-27 20:39:48.916][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-03-27 20:39:48.917][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:48.917][biodb::testThat]
biodb.TRACE[2024-03-27 20:39:48.920][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.921][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.923][ef$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:48.924][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-03-27 20:39:48.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:48.963][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-03-27 20:39:48.964][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-03-27 20:39:48.965][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-03-27 20:39:48.966][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-03-27 20:39:48.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:48.969][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:48.970][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:48.971][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:48.972][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:48.974][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:48.975][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:48.976][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:48.977][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:48.978][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:48.979][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-03-27 20:39:48.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.984][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:48.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:48.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:48.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:48.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:48.996][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:48.996][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:48.997][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-03-27 20:39:49.012][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.013][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.015][ef$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.016][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-03-27 20:39:49.026][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.030][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.040][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[2024-03-27 20:39:49.089][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-03-27 20:39:49.091][private$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[2024-03-27 20:39:49.092][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-03-27 20:39:49.105][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.106][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.108][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:49.109][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.110][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:49.128][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:49.129][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:49.130][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:49.131][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:49.132][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:49.133][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-03-27 20:39:49.135][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.142][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.146][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:49.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:49.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.150][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:49.151][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:49.152][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-03-27 20:39:49.162][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.163][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.165][ef$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.166][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-03-27 20:39:49.176][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.180][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.184][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.190][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-03-27 20:39:49.192][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-03-27 20:39:49.192][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-03-27 20:39:49.193][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-03-27 20:39:49.195][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.196][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.198][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:49.199][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.200][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:49.201][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:49.202][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:49.203][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:49.204][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:49.205][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:49.206][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-03-27 20:39:49.208][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.212][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.215][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.219][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:49.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.223][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:49.224][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:49.225][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-03-27 20:39:49.238][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.239][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-03-27 20:39:49.240][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:49.245][biodb::testThat]
biodb.TRACE[2024-03-27 20:39:49.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.276][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-03-27 20:39:49.277][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-03-27 20:39:49.278][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-03-27 20:39:49.280][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.281][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.283][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:49.284][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:49.285][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:49.286][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:49.287][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:49.288][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:49.289][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:49.290][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:49.291][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-03-27 20:39:49.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:49.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:49.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:49.308][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:49.309][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-03-27 20:39:49.322][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.323][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-03-27 20:39:49.324][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:49.325][biodb::testThat]
biodb.TRACE[2024-03-27 20:39:49.343][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.347][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.351][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-03-27 20:39:49.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-03-27 20:39:49.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-03-27 20:39:49.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-03-27 20:39:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.405][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.410][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-27 20:39:49.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.414][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-03-27 20:39:49.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-03-27 20:39:49.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:49.418][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-03-27 20:39:49.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-03-27 20:39:49.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:49.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-27 20:39:49.427][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.428][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-03-27 20:39:49.429][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:49.430][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.437][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.438][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-03-27 20:39:49.439][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:49.440][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.447][biodb::testThat]
biodb.INFO [2024-03-27 20:39:49.448][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-03-27 20:39:49.449][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:49.450][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:49.453][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-03-27 20:39:50.723][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-03-27 20:39:50.830][biodb::testThat]
biodb.INFO [2024-03-27 20:39:50.831][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-03-27 20:39:50.832][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:50.833][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:51.293][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-03-27 20:39:51.318][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:51.320][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:51.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.323][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.325][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:51.326][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:51.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.328][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.329][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:51.330][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:51.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.333][ef$get] fields variable is a list.
biodb.INFO [2024-03-27 20:39:51.334][biodb::testThat]
biodb.INFO [2024-03-27 20:39:51.336][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-03-27 20:39:51.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:51.338][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:51.340][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-03-27 20:39:51.411][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-03-27 20:39:51.413][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.415][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-03-27 20:39:51.431][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-03-27 20:39:51.432][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-27 20:39:51.434][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-27 20:39:51.435][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-03-27 20:39:51.436][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.438][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:51.439][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:51.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:51.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:51.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:51.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.450][FUN] Functions in observer BiodbConfig: [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[2024-03-27 20:39:51.451][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.455][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:51.488][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-03-27 20:39:51.489][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-03-27 20:39:51.505][biodb::testThat]
biodb.INFO [2024-03-27 20:39:51.506][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-03-27 20:39:51.507][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:51.508][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:51.516][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-03-27 20:39:51.517][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-03-27 20:39:51.518][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-03-27 20:39:51.520][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.521][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-03-27 20:39:51.523][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-03-27 20:39:51.524][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-27 20:39:51.526][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-27 20:39:51.527][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-03-27 20:39:51.528][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.529][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:51.530][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:51.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:51.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:51.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:51.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.541][FUN] Functions in observer BiodbConfig: [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[2024-03-27 20:39:51.543][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.547][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:51.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:51.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:51.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:51.605][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-03-27 20:39:51.606][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-03-27 20:39:51.607][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-03-27 20:39:51.619][biodb::testThat]
biodb.INFO [2024-03-27 20:39:51.620][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-03-27 20:39:51.621][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:51.622][biodb::testThat]
biodb.INFO [2024-03-27 20:39:51.643][biodb::testThat]
biodb.INFO [2024-03-27 20:39:51.644][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-03-27 20:39:51.645][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:51.646][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:51.649][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.650][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.651][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:51.653][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.654][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:51.655][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:51.656][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:51.657][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:51.658][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-03-27 20:39:51.665][biodb::testThat]
biodb.INFO [2024-03-27 20:39:51.666][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-03-27 20:39:51.667][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:51.668][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:51.671][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.672][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.674][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:51.675][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:51.676][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:51.677][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:51.678][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:51.679][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:51.680][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-03-27 20:39:51.688][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:51.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:51.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.692][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.693][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:51.694][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:51.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.696][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:51.697][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:51.698][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:51.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:51.699][ef$get] fields variable is a list.
biodb.INFO [2024-03-27 20:39:51.701][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-27 20:39:51.702][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-03-27 20:39:51.716][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-03-27 20:39:51.717][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-27 20:39:51.718][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:51.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:51.720][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.721][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.722][FUN] Functions in observer BiodbConfig: [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 [2024-03-27 20:39:51.726][biodb::testContext]
biodb.INFO [2024-03-27 20:39:51.727][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:51.728][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-03-27 20:39:51.729][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:51.730][biodb::testContext]
biodb.INFO [2024-03-27 20:39:51.734][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-27 20:39:51.736][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-27 20:39:51.739][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:51.740][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-27 20:39:51.741][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-27 20:39:51.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.745][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-27 20:39:51.746][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-27 20:39:51.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.750][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-27 20:39:51.751][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-27 20:39:51.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.755][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-27 20:39:51.756][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-27 20:39:51.757][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-27 20:39:51.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.760][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-27 20:39:51.761][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-27 20:39:51.762][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-27 20:39:51.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.766][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-27 20:39:51.767][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-27 20:39:51.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.770][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-27 20:39:51.771][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-27 20:39:51.772][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-27 20:39:51.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.776][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-27 20:39:51.777][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-27 20:39:51.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.781][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-27 20:39:51.782][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-27 20:39:51.783][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-27 20:39:51.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.786][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-27 20:39:51.787][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-27 20:39:51.788][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-27 20:39:51.789][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-27 20:39:51.790][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-27 20:39:51.791][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-27 20:39:51.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.795][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-27 20:39:51.796][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-27 20:39:51.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.800][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-27 20:39:51.801][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-27 20:39:51.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.805][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-27 20:39:51.806][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-27 20:39:51.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.809][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-27 20:39:51.810][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-27 20:39:51.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.814][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-27 20:39:51.815][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-27 20:39:51.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.819][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-27 20:39:51.820][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-27 20:39:51.823][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-27 20:39:51.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.833][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-27 20:39:51.834][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-27 20:39:51.835][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-27 20:39:51.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.839][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-27 20:39:51.841][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.842][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-03-27 20:39:51.843][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.844][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:51.845][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.846][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.847][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.848][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.849][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-27 20:39:51.850][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:51.851][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.852][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-27 20:39:51.853][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:51.854][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.855][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.856][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:51.856][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-27 20:39:51.856][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-27 20:39:51.856][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-27 20:39:51.856][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-27 20:39:51.857][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:51.858][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.859][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.860][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:51.861][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.862][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.863][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.864][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:51.865][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:51.866][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.867][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.868][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-27 20:39:51.870][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.871][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-27 20:39:51.872][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.873][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:51.874][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.875][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.876][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.877][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.878][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-27 20:39:51.879][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:51.880][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.881][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-27 20:39:51.882][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:51.883][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.884][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.885][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:51.885][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-27 20:39:51.885][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-27 20:39:51.885][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-27 20:39:51.885][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-27 20:39:51.887][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:51.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.889][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:51.890][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.891][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.892][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.893][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.894][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:51.895][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:51.896][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.897][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.898][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-27 20:39:51.900][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.901][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-03-27 20:39:51.902][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.903][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:51.904][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.905][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.906][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.907][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.908][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-27 20:39:51.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:51.910][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.911][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-27 20:39:51.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:51.913][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.914][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.915][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.916][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:51.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:51.920][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.921][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.922][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.923][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.924][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:51.925][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:51.926][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.927][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.928][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-27 20:39:51.930][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.931][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-27 20:39:51.932][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.933][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:51.934][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.935][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.941][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.942][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.943][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-27 20:39:51.944][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:51.945][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.946][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-27 20:39:51.947][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:51.948][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.949][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:51.950][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.951][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:51.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.952][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.953][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:51.954][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:51.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:51.956][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:51.957][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.958][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:51.959][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:51.960][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:51.961][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:51.962][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:51.963][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:51.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.992][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[2024-03-27 20:39:51.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:51.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:51.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:51.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:51.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.009][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[2024-03-27 20:39:52.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.015][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[2024-03-27 20:39:52.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.021][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[2024-03-27 20:39:52.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.037][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[2024-03-27 20:39:52.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.053][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[2024-03-27 20:39:52.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.066][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-27 20:39:52.068][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-27 20:39:52.090][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-27 20:39:52.093][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-27 20:39:52.095][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-27 20:39:52.096][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-27 20:39:52.098][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-27 20:39:52.099][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-27 20:39:52.101][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-27 20:39:52.102][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-27 20:39:52.104][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-27 20:39:52.105][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-27 20:39:52.107][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-27 20:39:52.108][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-27 20:39:52.110][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-27 20:39:52.111][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-27 20:39:52.113][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-27 20:39:52.114][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-27 20:39:52.116][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-27 20:39:52.117][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-27 20:39:52.119][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-27 20:39:52.120][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-27 20:39:52.122][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-27 20:39:52.124][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-27 20:39:52.125][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-27 20:39:52.127][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-27 20:39:52.128][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-27 20:39:52.130][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-27 20:39:52.131][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-27 20:39:52.133][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-27 20:39:52.134][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-27 20:39:52.135][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-27 20:39:52.137][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-27 20:39:52.138][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-27 20:39:52.139][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-27 20:39:52.141][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-27 20:39:52.142][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-27 20:39:52.143][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-27 20:39:52.145][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-27 20:39:52.146][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-27 20:39:52.147][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-27 20:39:52.149][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-27 20:39:52.150][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-27 20:39:52.151][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-27 20:39:52.153][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-27 20:39:52.154][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-27 20:39:52.155][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-27 20:39:52.157][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-27 20:39:52.158][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-27 20:39:52.160][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-27 20:39:52.161][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-27 20:39:52.162][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-27 20:39:52.164][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-27 20:39:52.165][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-27 20:39:52.166][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-27 20:39:52.168][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-27 20:39:52.169][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-27 20:39:52.170][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-27 20:39:52.172][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-27 20:39:52.173][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-27 20:39:52.175][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-27 20:39:52.176][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-27 20:39:52.177][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-27 20:39:52.178][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-27 20:39:52.180][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-27 20:39:52.181][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-27 20:39:52.183][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-27 20:39:52.184][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-27 20:39:52.185][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-27 20:39:52.187][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-27 20:39:52.188][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-27 20:39:52.190][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-27 20:39:52.191][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-27 20:39:52.192][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-27 20:39:52.199][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-27 20:39:52.201][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-27 20:39:52.202][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-27 20:39:52.203][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-27 20:39:52.205][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-27 20:39:52.206][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-27 20:39:52.207][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-27 20:39:52.209][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-27 20:39:52.210][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-27 20:39:52.211][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-27 20:39:52.213][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-27 20:39:52.214][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:52.215][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.217][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.241][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[2024-03-27 20:39:52.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.318][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[2024-03-27 20:39:52.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.326][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-03-27 20:39:52.327][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:52.329][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:52.330][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-27 20:39:52.331][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:52.332][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:52.333][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:52.334][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-03-27 20:39:52.335][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:52.336][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:52.337][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-27 20:39:52.338][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:52.339][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:52.340][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-03-27 20:39:52.341][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-03-27 20:39:52.342][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-03-27 20:39:52.343][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:52.344][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:52.344][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-03-27 20:39:52.344][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-03-27 20:39:52.345][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-27 20:39:52.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:52.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:52.347][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:52.348][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:52.349][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:52.350][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:52.351][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-03-27 20:39:52.351][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-03-27 20:39:52.352][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:52.353][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:52.354][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:52.355][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:52.356][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-03-27 20:39:52.357][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-27 20:39:52.359][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-27 20:39:52.360][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-27 20:39:52.362][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-27 20:39:52.365][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:52.366][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-03-27 20:39:52.367][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:52.369][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:52.370][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:52.371][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:52.372][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-03-27 20:39:52.373][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-03-27 20:39:52.374][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-03-27 20:39:52.374][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-03-27 20:39:52.375][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:52.376][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:52.377][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-03-27 20:39:52.378][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-03-27 20:39:52.379][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:52.380][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:52.381][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:52.382][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:52.383][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:52.385][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:52.385][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-03-27 20:39:52.387][biodb::testThat]
biodb.INFO [2024-03-27 20:39:52.388][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-03-27 20:39:52.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:52.390][biodb::testThat]
biodb.INFO [2024-03-27 20:39:52.394][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-03-27 20:39:52.395][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-03-27 20:39:52.396][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-03-27 20:39:52.397][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-03-27 20:39:52.399][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-03-27 20:39:52.400][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-03-27 20:39:52.402][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:52.403][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-03-27 20:39:52.404][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-03-27 20:39:52.411][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker28e4325e230867marker".
biodb.TRACE[2024-03-27 20:39:52.412][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-03-27 20:39:52.413][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:52.414][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-03-27 20:39:52.416][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-03-27 20:39:52.417][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-03-27 20:39:52.418][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-03-27 20:39:52.419][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-03-27 20:39:52.426][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-03-27 20:39:52.427][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-03-27 20:39:52.428][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-03-27 20:39:52.430][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-03-27 20:39:52.438][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-03-27 20:39:52.439][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-03-27 20:39:52.440][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:52.441][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-03-27 20:39:52.443][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker28e43210d95574marker".
biodb.TRACE[2024-03-27 20:39:52.444][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-03-27 20:39:52.445][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:52.446][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:52.447][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:52.448][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:52.449][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:52.450][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:52.451][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:52.452][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:52.455][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-03-27 20:39:52.460][biodb::testThat]
biodb.INFO [2024-03-27 20:39:52.461][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-03-27 20:39:52.462][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:52.463][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:52.465][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-03-27 20:39:52.466][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-03-27 20:39:52.467][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:52.469][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-03-27 20:39:52.470][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-03-27 20:39:52.472][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-27 20:39:52.473][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-03-27 20:39:52.474][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-03-27 20:39:52.475][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:52.476][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:52.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:52.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-27 20:39:52.491][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.492][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.494][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.499][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.500][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.502][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.503][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.507][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.508][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.510][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.511][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.515][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.516][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.518][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.519][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.526][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.536][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.537][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.539][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.544][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.545][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.547][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.548][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.552][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.553][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.555][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.556][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.561][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.562][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.564][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.565][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.569][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.570][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.572][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.573][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.577][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:52.578][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:52.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.579][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.581][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:52.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:52.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.585][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:52.586][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:52.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.587][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.589][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:52.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:52.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.593][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.594][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.595][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.601][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.602][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.603][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.609][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.610][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.611][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.617][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:52.618][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:52.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.619][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.621][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:52.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:52.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.625][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:52.626][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:52.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.627][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:52.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:52.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.633][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:52.638][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.640][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.642][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:52.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.657][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.661][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.664][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:52.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.668][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.672][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.676][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:52.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:52.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:52.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.702][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.706][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.710][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:52.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.714][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.718][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.722][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:52.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.726][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.730][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.733][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:52.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.742][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:52.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:52.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.746][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:52.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:52.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.750][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:52.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:52.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:52.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:52.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.757][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:52.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:52.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.761][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:52.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:52.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:52.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:52.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:52.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:52.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:52.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:52.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.788][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.792][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.796][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:52.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:52.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.811][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.823][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.827][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.830][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:52.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.834][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.838][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.847][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:52.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.850][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:52.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:52.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.854][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:52.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:52.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.858][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:52.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:52.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.862][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:52.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.877][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:52.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:52.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:52.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:52.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.901][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:52.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:52.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.905][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:52.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:52.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.912][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:52.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:52.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:52.939][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-03-27 20:39:52.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:52.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:52.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:52.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:52.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-27 20:39:52.962][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-27 20:39:52.963][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-03-27 20:39:52.964][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-03-27 20:39:52.965][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-27 20:39:52.966][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:52.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:52.968][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:52.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:52.969][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-03-27 20:39:52.974][biodb::testContext]
biodb.INFO [2024-03-27 20:39:52.975][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:52.976][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-03-27 20:39:52.977][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-27 20:39:52.978][biodb::testContext]
biodb.INFO [2024-03-27 20:39:52.982][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-27 20:39:52.983][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-27 20:39:52.987][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:52.988][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-27 20:39:52.989][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-27 20:39:52.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.992][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[2024-03-27 20:39:52.993][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-27 20:39:52.994][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-27 20:39:52.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:52.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:52.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:52.997][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-27 20:39:52.998][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-27 20:39:52.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.001][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[2024-03-27 20:39:53.002][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-27 20:39:53.003][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-27 20:39:53.004][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-27 20:39:53.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.007][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-27 20:39:53.008][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-27 20:39:53.009][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-27 20:39:53.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.013][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-27 20:39:53.014][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-27 20:39:53.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.017][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-27 20:39:53.018][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-27 20:39:53.019][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-27 20:39:53.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.022][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-27 20:39:53.023][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-27 20:39:53.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.027][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-27 20:39:53.028][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-27 20:39:53.029][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-27 20:39:53.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.032][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-27 20:39:53.033][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-27 20:39:53.034][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-27 20:39:53.035][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-27 20:39:53.036][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-27 20:39:53.037][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-27 20:39:53.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.041][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-27 20:39:53.042][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-27 20:39:53.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.044][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[2024-03-27 20:39:53.045][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-27 20:39:53.046][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-27 20:39:53.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.054][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-27 20:39:53.056][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-27 20:39:53.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.058][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[2024-03-27 20:39:53.059][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-27 20:39:53.060][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-27 20:39:53.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.064][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-27 20:39:53.065][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-27 20:39:53.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.068][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-27 20:39:53.069][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-27 20:39:53.074][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-27 20:39:53.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.078][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-27 20:39:53.079][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-27 20:39:53.080][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-27 20:39:53.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.084][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-27 20:39:53.085][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.086][self$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[2024-03-27 20:39:53.087][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.088][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:53.089][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.090][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.091][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.093][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-27 20:39:53.094][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:53.095][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.096][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-27 20:39:53.097][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:53.098][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.099][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.100][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:53.100][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-27 20:39:53.100][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-27 20:39:53.100][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-27 20:39:53.100][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-27 20:39:53.101][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:53.102][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.103][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.104][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:53.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.106][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.107][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.108][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:53.109][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:53.110][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.111][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.112][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-27 20:39:53.114][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.115][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-27 20:39:53.116][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.117][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:53.118][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.119][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.120][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.121][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.122][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-27 20:39:53.123][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:53.124][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.124][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-27 20:39:53.125][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:53.126][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.127][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.128][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:53.128][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-27 20:39:53.128][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-27 20:39:53.128][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-27 20:39:53.128][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-27 20:39:53.129][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:53.130][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.131][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.132][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:53.133][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.134][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.135][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.136][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.137][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:53.137][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:53.138][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.139][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.140][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-27 20:39:53.142][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.143][self$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[2024-03-27 20:39:53.144][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.145][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:53.146][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.147][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.148][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.149][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.150][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-27 20:39:53.151][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:53.152][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.153][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-27 20:39:53.154][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:53.155][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.160][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.162][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.163][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:53.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.164][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.165][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:53.166][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.167][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.168][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.169][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.170][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:53.171][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:53.172][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.173][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.174][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-27 20:39:53.175][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.176][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-27 20:39:53.177][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.178][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:53.179][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.180][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.181][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.182][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.183][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-27 20:39:53.184][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:53.185][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.186][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-27 20:39:53.187][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:53.188][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.189][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.190][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.191][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-27 20:39:53.192][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.193][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.194][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:53.195][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.196][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.197][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.198][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:53.199][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:53.200][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.201][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.202][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:53.203][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.222][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[2024-03-27 20:39:53.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.231][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[2024-03-27 20:39:53.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.269][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[2024-03-27 20:39:53.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.274][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.DEBUG[2024-03-27 20:39:53.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.283][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-27 20:39:53.284][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-27 20:39:53.286][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-27 20:39:53.287][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-27 20:39:53.288][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-27 20:39:53.290][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-27 20:39:53.291][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-27 20:39:53.296][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-27 20:39:53.298][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-27 20:39:53.300][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-27 20:39:53.301][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-27 20:39:53.303][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-27 20:39:53.304][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-27 20:39:53.306][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-27 20:39:53.307][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-27 20:39:53.308][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-27 20:39:53.310][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-27 20:39:53.311][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-27 20:39:53.313][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-27 20:39:53.314][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-27 20:39:53.316][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-27 20:39:53.317][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-27 20:39:53.319][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-27 20:39:53.320][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-27 20:39:53.322][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-27 20:39:53.323][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-27 20:39:53.325][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-27 20:39:53.326][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-27 20:39:53.328][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-27 20:39:53.330][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-27 20:39:53.331][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-27 20:39:53.333][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-27 20:39:53.334][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-27 20:39:53.335][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-27 20:39:53.337][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-27 20:39:53.338][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-27 20:39:53.340][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-27 20:39:53.341][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-27 20:39:53.343][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-27 20:39:53.344][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-27 20:39:53.346][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-27 20:39:53.347][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-27 20:39:53.349][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-27 20:39:53.350][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-27 20:39:53.352][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-27 20:39:53.354][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-27 20:39:53.355][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-27 20:39:53.357][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-27 20:39:53.358][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-27 20:39:53.360][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-27 20:39:53.361][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-27 20:39:53.363][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-27 20:39:53.364][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-27 20:39:53.366][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-27 20:39:53.384][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-27 20:39:53.385][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-27 20:39:53.387][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-27 20:39:53.388][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-27 20:39:53.390][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-27 20:39:53.391][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-27 20:39:53.393][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-27 20:39:53.394][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-27 20:39:53.395][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-27 20:39:53.397][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-27 20:39:53.398][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-27 20:39:53.400][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-27 20:39:53.401][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-27 20:39:53.403][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-27 20:39:53.404][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-27 20:39:53.406][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-27 20:39:53.407][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-27 20:39:53.408][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-27 20:39:53.410][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-27 20:39:53.412][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-27 20:39:53.413][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-27 20:39:53.414][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-27 20:39:53.416][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-27 20:39:53.417][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-27 20:39:53.418][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-27 20:39:53.420][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-27 20:39:53.421][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-27 20:39:53.422][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-27 20:39:53.424][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-27 20:39:53.425][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-27 20:39:53.427][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-27 20:39:53.428][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-27 20:39:53.429][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.430][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.443][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[2024-03-27 20:39:53.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.449][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[2024-03-27 20:39:53.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.496][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[2024-03-27 20:39:53.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.502][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[2024-03-27 20:39:53.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.508][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[2024-03-27 20:39:53.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.525][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[2024-03-27 20:39:53.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.531][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[2024-03-27 20:39:53.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-27 20:39:53.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:53.539][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-03-27 20:39:53.540][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:53.542][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.543][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.544][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.545][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-27 20:39:53.546][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.547][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-03-27 20:39:53.548][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.549][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.550][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-27 20:39:53.551][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-27 20:39:53.552][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.553][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-03-27 20:39:53.554][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-03-27 20:39:53.555][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-03-27 20:39:53.556][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-27 20:39:53.557][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-27 20:39:53.557][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-03-27 20:39:53.557][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-03-27 20:39:53.558][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-27 20:39:53.559][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.560][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.561][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-27 20:39:53.561][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-27 20:39:53.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-27 20:39:53.563][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-27 20:39:53.564][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-03-27 20:39:53.564][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-03-27 20:39:53.565][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:53.566][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:53.567][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-27 20:39:53.568][self$setPropertyValue]
biodb.DEBUG[2024-03-27 20:39:53.569][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-03-27 20:39:53.570][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-27 20:39:53.572][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-27 20:39:53.574][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-27 20:39:53.575][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-27 20:39:53.583][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:53.584][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-03-27 20:39:53.585][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:53.587][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:53.588][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:53.589][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:53.590][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-03-27 20:39:53.591][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-03-27 20:39:53.592][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-03-27 20:39:53.592][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-03-27 20:39:53.593][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-27 20:39:53.594][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-27 20:39:53.594][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-03-27 20:39:53.595][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-03-27 20:39:53.596][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-03-27 20:39:53.598][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:53.599][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:53.600][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:53.601][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-03-27 20:39:53.602][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-27 20:39:53.603][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-03-27 20:39:53.604][biodb::testThat]
biodb.INFO [2024-03-27 20:39:53.605][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-03-27 20:39:53.606][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-27 20:39:53.607][biodb::testThat]
biodb.DEBUG[2024-03-27 20:39:53.609][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-03-27 20:39:53.610][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-03-27 20:39:53.611][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-03-27 20:39:53.614][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:53.616][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:53.617][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:53.618][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:53.619][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:53.620][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:53.621][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:53.622][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:53.623][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:53.624][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:53.625][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-03-27 20:39:53.627][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-03-27 20:39:53.628][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-03-27 20:39:53.629][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:53.631][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-03-27 20:39:53.633][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-03-27 20:39:53.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-27 20:39:53.636][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-03-27 20:39:53.637][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-03-27 20:39:53.638][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:53.639][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:53.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:53.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:53.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:53.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:53.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:53.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:53.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-27 20:39:53.654][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:53.655][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:53.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.657][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:53.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:53.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.662][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:53.663][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:53.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.665][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.666][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:53.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:53.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.670][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.671][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.673][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.674][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.678][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.679][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.681][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.682][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.694][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.700][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.701][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.702][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.710][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.712][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.716][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:53.717][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:53.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.718][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.720][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:53.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:53.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.724][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.725][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.727][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.732][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.733][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.735][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.736][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.740][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:53.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:53.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.743][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:53.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:53.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.748][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:53.749][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:53.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.751][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:53.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:53.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.756][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.757][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.759][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.764][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.765][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.767][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.772][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:53.773][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:53.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.775][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:53.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:53.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.780][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:53.781][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:53.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.783][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.784][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:53.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:53.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:53.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:53.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.796][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.797][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:53.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:53.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.801][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:53.802][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.804][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.805][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:53.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:53.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:53.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:53.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:53.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:53.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:53.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.821][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.825][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.829][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:53.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.833][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.837][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.841][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:53.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:53.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:53.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.875][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:53.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.879][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:53.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.901][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:53.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:53.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:53.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.917][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:53.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:53.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.921][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:53.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:53.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.925][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:53.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:53.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:53.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:53.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:53.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:53.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:53.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:53.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:53.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:53.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:53.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:53.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:53.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.960][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:53.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:53.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:53.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:53.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:53.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:53.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:53.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:53.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.995][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:53.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:53.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:53.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:53.999][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.008][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.017][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.021][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.025][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.032][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.036][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:54.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.052][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:54.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.076][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.080][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.088][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.122][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-03-27 20:39:54.123][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.127][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.131][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.138][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:54.139][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:54.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:54.151][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-03-27 20:39:54.152][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-03-27 20:39:54.154][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:54.155][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-03-27 20:39:54.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-03-27 20:39:54.158][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-27 20:39:54.160][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-03-27 20:39:54.161][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-03-27 20:39:54.162][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-03-27 20:39:54.163][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-03-27 20:39:54.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-27 20:39:54.178][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.179][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.180][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.186][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.187][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.188][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.190][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.194][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.195][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.197][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.198][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.202][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.203][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.205][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.206][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.210][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.213][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.223][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.224][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.227][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.232][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.233][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.235][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.237][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.241][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.242][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.244][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.245][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.249][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.250][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.252][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.254][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.258][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.259][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.261][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.262][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.266][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:54.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:54.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.269][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:54.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:54.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:54.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:54.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.277][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:54.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:54.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.282][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.283][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.285][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.290][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.293][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.298][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.301][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.306][ef$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.307][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.309][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.315][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.317][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.322][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:54.323][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.325][ef$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.326][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-03-27 20:39:54.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.348][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.352][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.356][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-27 20:39:54.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.359][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.363][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.367][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-03-27 20:39:54.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-27 20:39:54.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-03-27 20:39:54.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.394][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.398][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.402][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-03-27 20:39:54.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.406][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.409][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.413][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-03-27 20:39:54.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.417][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.421][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.425][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-03-27 20:39:54.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:54.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:54.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.450][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:54.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:54.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-27 20:39:54.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-27 20:39:54.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:54.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:54.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:54.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:54.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-27 20:39:54.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-27 20:39:54.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.481][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.485][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.488][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-27 20:39:54.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-27 20:39:54.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.518][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.522][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.526][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-03-27 20:39:54.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.538][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-03-27 20:39:54.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.555][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-27 20:39:54.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-27 20:39:54.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.559][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:54.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.575][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-03-27 20:39:54.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-27 20:39:54.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.583][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-27 20:39:54.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-27 20:39:54.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.599][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.603][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.611][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-03-27 20:39:54.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-27 20:39:54.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-27 20:39:54.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.638][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-03-27 20:39:54.639][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.643][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.652][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.657][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.660][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:54.661][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:54.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:54.676][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-03-27 20:39:54.677][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-03-27 20:39:54.678][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.INFO [2024-03-27 20:39:54.680][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-03-27 20:39:54.681][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-03-27 20:39:54.682][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-03-27 20:39:54.683][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-03-27 20:39:54.685][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-03-27 20:39:54.686][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-03-27 20:39:54.687][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:54.689][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-03-27 20:39:54.690][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-03-27 20:39:54.691][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker28e43229b4af19marker".
biodb.TRACE[2024-03-27 20:39:54.693][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-03-27 20:39:54.694][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:54.695][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-03-27 20:39:54.696][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-03-27 20:39:54.697][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-03-27 20:39:54.699][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-03-27 20:39:54.700][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-03-27 20:39:54.702][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-03-27 20:39:54.703][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-03-27 20:39:54.704][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-03-27 20:39:54.706][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-03-27 20:39:54.714][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-03-27 20:39:54.715][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-03-27 20:39:54.716][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:54.717][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-03-27 20:39:54.719][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker28e43221882315marker".
biodb.TRACE[2024-03-27 20:39:54.720][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-03-27 20:39:54.721][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-03-27 20:39:54.722][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:54.723][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:54.724][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:54.726][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:54.727][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:54.728][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:54.728][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:54.729][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:54.730][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-03-27 20:39:54.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.740][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.744][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.748][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.752][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.756][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.760][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:54.761][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:54.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.777][FUN] Functions in observer BiodbConfig: [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[2024-03-27 20:39:54.778][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.782][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.785][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.789][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.793][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.797][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.801][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.805][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-03-27 20:39:54.805][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:54.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-27 20:39:54.820][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-03-27 20:39:54.821][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-03-27 20:39:54.822][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-03-27 20:39:54.824][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:54.825][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:54.826][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-03-27 20:39:54.828][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-03-27 20:39:54.829][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-03-27 20:39:54.830][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-03-27 20:39:54.831][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-03-27 20:39:54.832][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-03-27 20:39:54.833][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-03-27 20:39:54.834][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-03-27 20:39:54.835][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-03-27 20:39:54.836][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.840][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.844][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.852][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.856][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.860][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.864][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-03-27 20:39:54.865][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-03-27 20:39:54.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.882][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.TRACE[2024-03-27 20:39:54.883][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.887][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.891][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.899][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.902][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-27 20:39:54.906][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-03-27 20:39:54.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-03-27 20:39:54.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-27 20:39:54.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-27 20:39:54.910][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-03-27 20:39:54.911][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-03-27 20:39:54.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-27 20:39:54.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.921][FUN] Functions in observer BiodbConfig: [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 [2024-03-27 20:39:54.928][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-27 20:39:54.929][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-03-27 20:39:54.930][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-03-27 20:39:54.931][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-27 20:39:54.932][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-27 20:39:54.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-27 20:39:54.934][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-27 20:39:54.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-27 20:39:54.935][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-27 20:39:54.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
8.734 0.455 10.714