Pierrick Roger
| Snapshot Date: 2024-11-27 13:40 -0500 (Wed, 27 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: d2b9830 |
| git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-11-28 12:15 -0500 (Thu, 28 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4748 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4459 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4398 |
| 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 201/2272 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.13.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
|
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: 1.13.0 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbHmdb.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbHmdb_1.13.0.tar.gz |
| StartedAt: 2024-11-27 22:32:54 -0500 (Wed, 27 Nov 2024) |
| EndedAt: 2024-11-27 22:34:28 -0500 (Wed, 27 Nov 2024) |
| EllapsedTime: 93.8 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
##############################################################################
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###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbHmdb.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbHmdb_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck'
* using R Under development (unstable) (2024-10-26 r87273 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.2.0
GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbHmdb/DESCRIPTION' ... OK
* this is package 'biodbHmdb' version '1.13.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking 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 'E:/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00install.out' for details.
* used C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
* 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 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 for x64 is not available
File 'E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/libs/x64/biodbHmdb.dll':
Found '_exit', possibly from '_exit' (C)
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ... NONE
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs, 2 NOTEs
See
'E:/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00check.log'
for details.
biodbHmdb.Rcheck/00install.out
##############################################################################
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###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'biodbHmdb' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -s -static-libgcc -o biodbHmdb.dll tmp.def 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 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs/x64
** 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
** 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) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-11-27 22:34:09.774][biodb::testContext]
biodb.INFO [2024-11-27 22:34:09.777][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:09.779][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-11-27 22:34:09.781][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:09.783][biodb::testContext]
biodb.INFO [2024-11-27 22:34:09.786][biodb::testThat]
biodb.INFO [2024-11-27 22:34:09.787][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-11-27 22:34:09.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:09.791][biodb::testThat]
biodb.INFO [2024-11-27 22:34:10.009][biodb::testContext]
biodb.INFO [2024-11-27 22:34:10.010][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:10.011][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-27 22:34:10.013][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:10.014][biodb::testContext]
biodb.INFO [2024-11-27 22:34:10.024][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:34:10.026][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:34:10.034][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:10.035][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:34:10.037][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:34:10.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.042][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:34:10.067][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:34:10.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.072][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:34:10.073][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:34:10.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.078][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:34:10.079][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:34:10.080][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:34:10.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.085][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:34:10.086][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:34:10.087][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:34:10.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.092][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:34:10.094][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:34:10.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.098][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:34:10.099][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:34:10.101][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:34:10.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.105][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:34:10.107][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:34:10.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.111][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:34:10.113][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:34:10.114][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:34:10.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.119][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:34:10.120][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:34:10.122][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:34:10.124][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:34:10.126][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:34:10.128][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:34:10.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.132][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:34:10.134][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:34:10.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.138][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:34:10.140][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:34:10.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.145][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:34:10.146][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:34:10.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.150][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:34:10.152][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:34:10.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.156][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:34:10.158][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:34:10.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.162][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:34:10.163][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:34:10.167][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:34:10.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.172][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:34:10.173][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:34:10.174][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:34:10.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.181][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:34:10.211][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.226][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:34:10.227][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.228][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:10.230][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.231][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.232][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.234][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.235][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:34:10.236][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:10.237][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.239][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:34:10.240][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:10.241][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.242][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.244][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:10.244][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:34:10.244][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:34:10.244][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:34:10.244][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:34:10.245][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:10.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.248][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:10.250][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.256][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.258][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.259][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.260][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:10.261][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:10.262][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.264][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.265][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:34:10.267][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.268][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:34:10.269][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.271][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:10.272][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.273][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.275][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.276][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.277][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:34:10.278][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:10.280][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.281][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:34:10.282][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:10.283][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.285][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.286][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:10.286][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:34:10.286][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:34:10.286][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:34:10.286][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:34:10.287][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:10.288][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.290][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.291][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:10.292][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.293][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.295][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.297][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.299][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:10.301][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:10.303][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.304][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.306][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:34:10.308][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.309][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:34:10.310][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.311][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:10.313][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.314][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.315][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.316][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.317][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:34:10.318][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:10.320][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.321][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:34:10.322][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:10.323][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.324][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.325][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.327][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:10.328][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.329][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.330][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:10.331][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.333][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.335][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.336][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:10.337][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:10.338][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.339][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.341][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:34:10.342][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.344][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:34:10.345][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.346][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:10.347][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.348][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.349][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.351][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.352][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:34:10.353][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:10.354][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.355][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:34:10.357][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:10.359][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.361][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.363][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.365][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:10.367][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.368][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.370][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:10.372][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.374][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.375][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.377][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.379][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:10.381][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:10.383][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.384][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.390][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:10.392][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.444][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[2024-11-27 22:34:10.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.450][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.DEBUG[2024-11-27 22:34:10.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.487][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.DEBUG[2024-11-27 22:34:10.489][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:34:10.499][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:34:10.502][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:34:10.503][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:34:10.505][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:34:10.506][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:34:10.508][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:34:10.509][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:34:10.511][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:34:10.513][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:34:10.514][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:34:10.516][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:34:10.517][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:34:10.519][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:34:10.520][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:34:10.522][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:34:10.523][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:34:10.525][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:34:10.526][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:34:10.529][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:34:10.531][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:34:10.533][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:34:10.534][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:34:10.536][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:34:10.538][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:34:10.539][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:34:10.541][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:34:10.542][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:34:10.544][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:34:10.545][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:34:10.547][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:34:10.549][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:34:10.550][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:34:10.552][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:34:10.553][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:34:10.555][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:34:10.556][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:34:10.558][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:34:10.559][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:34:10.561][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:34:10.562][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:34:10.564][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:34:10.566][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:34:10.567][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:34:10.569][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:34:10.571][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:34:10.573][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:34:10.574][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:34:10.576][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:34:10.577][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:34:10.579][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:34:10.580][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:34:10.582][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:34:10.583][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:34:10.585][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:34:10.587][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:34:10.588][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:34:10.590][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:34:10.591][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:34:10.593][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:34:10.594][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:34:10.596][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:34:10.597][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:34:10.599][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:34:10.600][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:34:10.602][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:34:10.603][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:34:10.605][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:34:10.607][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:34:10.608][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:34:10.610][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:34:10.611][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:34:10.613][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:34:10.614][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:34:10.616][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:34:10.617][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:34:10.619][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:34:10.620][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:34:10.622][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:34:10.624][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:34:10.625][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:34:10.627][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:34:10.628][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:34:10.651][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:34:10.654][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:34:10.657][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:10.658][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.660][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.785][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[2024-11-27 22:34:10.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.815][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[2024-11-27 22:34:10.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:10.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:10.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:10.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:10.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:10.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:10.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:10.825][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-27 22:34:10.843][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:10.845][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.846][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.847][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.848][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:10.850][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.851][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-27 22:34:10.852][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.853][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.854][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:34:10.855][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:10.857][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.858][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-27 22:34:10.859][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-27 22:34:10.860][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-27 22:34:10.861][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:10.863][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:10.863][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-27 22:34:10.863][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-27 22:34:10.864][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:34:10.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.867][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:10.868][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:10.869][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:10.870][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:10.872][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-27 22:34:10.872][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-27 22:34:10.873][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:10.874][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:10.875][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:10.876][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:10.882][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-27 22:34:10.883][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:34:10.885][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:34:10.887][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:34:10.889][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:34:10.909][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:10.910][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-27 22:34:10.914][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:10.918][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:10.921][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:10.923][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:10.924][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-27 22:34:10.925][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-27 22:34:10.927][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-27 22:34:10.927][self$setPropertyValue] Setting property "urls" to "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-27 22:34:10.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:10.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:10.930][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-27 22:34:10.931][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-27 22:34:10.932][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:10.955][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:10.957][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:10.958][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:10.959][private$addConnectorRules] Create new rule for URL "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:10.961][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:10.962][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-27 22:34:10.971][biodb::testThat]
biodb.INFO [2024-11-27 22:34:10.972][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-27 22:34:10.974][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:10.975][biodb::testThat]
biodb.TRACE[2024-11-27 22:34:11.358][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-11-27 22:34:11.360][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:11.364][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:11.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:11.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:11.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:11.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:11.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:11.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:11.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:11.510][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:11.511][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:11.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:11.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:11.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.530][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:11.532][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:11.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.534][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.556][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:11.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:11.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.562][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.563][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.565][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.571][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.573][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.575][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.576][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.585][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.591][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.593][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.595][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.601][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.603][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.605][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.606][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.611][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.612][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.615][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.623][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.628][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.630][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.632][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.633][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.638][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.640][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.642][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.643][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.648][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:11.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:11.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:11.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:11.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.658][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:11.659][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:11.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.661][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.668][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.669][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.678][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.679][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.688][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:11.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:11.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:11.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:11.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.700][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:11.701][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:11.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.703][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.704][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:11.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.709][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:11.711][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:11.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.713][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:11.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:11.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.719][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:11.720][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.723][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.724][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:11.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:11.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:11.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:11.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:11.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:11.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:11.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.781][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.790][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:11.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.800][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.804][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:11.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:11.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.847][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:11.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.856][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.861][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:11.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.870][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.875][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:11.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.879][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:11.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:11.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:11.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:11.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.889][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:11.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:11.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.893][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:11.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:11.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:11.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:11.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.903][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:11.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:11.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:11.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:11.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:11.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:11.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:11.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:11.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:11.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.936][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.940][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.945][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:11.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:11.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:11.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:11.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:11.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:11.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:11.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:11.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.983][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.988][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.993][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:11.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:11.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:11.997][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:11.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.002][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.007][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.011][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.027][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:12.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.046][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:12.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.066][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.090][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.095][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.104][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:12.143][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-27 22:34:12.146][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:34:12.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:34:12.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.151][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:34:12.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:34:12.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.156][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-27 22:34:12.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-27 22:34:12.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.161][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-27 22:34:12.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-27 22:34:12.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.218][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.266][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.271][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.276][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:12.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.321][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.323][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:12.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:12.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.347][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.352][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.357][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.361][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.363][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.365][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.366][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:12.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.405][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.406][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.409][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:12.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.442][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.447][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.452][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.453][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.455][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.456][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:12.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.495][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:12.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.515][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.520][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.525][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.529][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.531][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.533][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.534][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:12.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.563][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.568][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:12.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:12.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.592][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:12.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:12.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.597][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:12.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:12.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.602][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:12.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:12.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.607][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:12.608][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:12.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.611][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:12.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:12.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:12.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:12.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.635][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:12.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:12.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:12.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:12.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.645][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:12.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:12.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.648][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.649][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:12.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.668][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.678][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.683][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.684][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.686][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.687][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:12.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.720][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.724][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:12.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.751][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.756][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.761][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.766][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.767][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.769][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.770][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:12.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.793][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.808][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.813][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.814][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.816][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.818][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:12.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.845][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.855][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.856][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.859][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.860][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:12.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.894][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.904][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.905][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.909][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:12.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:12.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:12.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:12.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:12.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:12.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:12.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:12.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:12.958][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:12.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:12.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:12.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.995][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.996][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:12.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:12.998][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:12.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.018][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.027][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.037][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.038][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.040][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.041][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.060][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:13.061][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:13.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.064][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.080][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.081][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.084][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.096][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.097][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.099][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.132][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.134][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.143][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.144][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.154][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:13.156][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:13.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.158][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.169][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:13.170][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:13.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.173][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.191][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:13.192][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:13.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.195][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.201][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:13.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:13.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.205][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:13.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:13.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.215][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:13.245][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:13.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.248][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.254][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:13.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:13.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.258][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.268][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:13.270][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:13.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.272][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.279][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:13.280][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:13.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.282][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.298][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:13.299][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:13.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.302][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:13.315][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:13.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.318][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:34:13.333][biodb::testThat]
biodb.INFO [2024-11-27 22:34:13.334][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-27 22:34:13.335][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:13.336][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:13.350][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-27 22:34:13.357][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-27 22:34:13.535][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:13.537][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-27 22:34:13.540][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-27 22:34:13.541][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:34:13.558][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-27 22:34:13.560][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:34:13.598][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:13.601][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:13.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:13.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:13.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:13.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:13.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:13.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:13.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:13.639][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:13.640][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:13.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:13.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:13.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.650][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:13.651][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:13.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.653][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.655][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:13.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:13.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.660][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.661][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.663][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.665][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.670][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.671][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.674][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.675][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.680][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.691][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.692][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.696][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.705][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:13.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:13.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.715][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:13.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:13.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.722][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:13.723][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:13.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.727][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:13.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:13.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.732][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.734][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.736][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.738][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.743][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:13.744][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:13.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:13.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:13.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.754][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:13.755][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:13.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:13.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:13.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:13.765][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:13.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.768][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:13.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:13.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.774][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.776][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.778][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:13.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.785][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:13.786][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:13.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.788][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:13.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:13.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.795][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:13.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:13.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.799][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:13.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:13.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.805][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:13.807][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:13.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.811][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:13.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:13.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.819][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:13.821][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:13.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:13.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:13.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.836][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:13.838][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:13.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.842][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.845][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:13.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:13.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:13.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:13.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:13.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:13.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:13.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:13.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.879][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.887][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.903][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.911][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.918][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:13.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:13.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:13.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.982][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.990][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:13.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:13.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:13.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.003][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:14.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:14.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.010][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:14.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:14.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:14.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:14.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.026][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:14.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:14.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.034][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:14.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:14.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:14.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:14.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.049][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.057][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.065][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:14.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:14.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:14.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:14.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:14.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:14.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:14.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:14.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:14.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:14.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:14.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:14.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.125][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:14.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:14.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.130][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:14.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:14.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.135][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:14.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:14.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:14.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:14.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:14.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:14.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:14.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:14.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.178][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:14.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:14.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:14.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:14.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.194][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:14.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:14.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.202][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.207][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.212][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.217][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:14.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:14.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:14.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:14.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:14.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:14.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.232][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:14.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.252][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:14.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:14.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.283][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:14.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:14.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.288][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:14.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:14.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.298][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:14.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:14.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:14.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:14.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.334][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-27 22:34:14.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-27 22:34:14.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-27 22:34:14.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-27 22:34:14.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-27 22:34:14.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-27 22:34:14.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-27 22:34:14.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:34:14.370][biodb::testThat]
biodb.INFO [2024-11-27 22:34:14.376][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-27 22:34:14.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:14.379][biodb::testThat]
biodb.TRACE[2024-11-27 22:34:14.383][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.386][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.388][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-11-27 22:34:14.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.447][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-11-27 22:34:14.449][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-27 22:34:14.450][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-27 22:34:14.451][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-27 22:34:14.453][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.455][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.457][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:14.459][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.460][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:14.461][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:14.463][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:14.465][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:14.467][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:14.470][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:14.471][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-27 22:34:14.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.496][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:14.498][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:14.499][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-27 22:34:14.548][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.550][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.552][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.554][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-11-27 22:34:14.581][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.586][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.598][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2024-11-27 22:34:14.653][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-27 22:34:14.655][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-27 22:34:14.656][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-27 22:34:14.669][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.671][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.673][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:14.674][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.676][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:14.690][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:14.692][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:14.693][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:14.694][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:14.696][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:14.697][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-27 22:34:14.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.704][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.709][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.713][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:14.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:14.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.718][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:14.719][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:14.720][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-27 22:34:14.758][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.760][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.762][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.764][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-11-27 22:34:14.781][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.786][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.791][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.799][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-11-27 22:34:14.801][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-11-27 22:34:14.802][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-27 22:34:14.803][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-27 22:34:14.806][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.807][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.809][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:14.811][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.812][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:14.814][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:14.815][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:14.817][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:14.818][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:14.819][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:14.820][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-27 22:34:14.823][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.828][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.837][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:14.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.842][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:14.843][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:14.844][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-11-27 22:34:14.872][biodb::testThat]
biodb.INFO [2024-11-27 22:34:14.874][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-27 22:34:14.875][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:14.876][biodb::testThat]
biodb.TRACE[2024-11-27 22:34:14.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.927][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-27 22:34:14.929][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-27 22:34:14.930][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-27 22:34:14.932][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.934][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.935][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:14.937][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:14.938][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:14.940][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:14.941][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:14.943][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:14.944][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:14.945][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:14.946][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-27 22:34:14.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.964][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:14.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:14.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:14.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:14.974][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:14.975][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-11-27 22:34:15.031][biodb::testThat]
biodb.INFO [2024-11-27 22:34:15.032][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-27 22:34:15.033][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:15.034][biodb::testThat]
biodb.TRACE[2024-11-27 22:34:15.058][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.063][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-27 22:34:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-27 22:34:15.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.072][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-27 22:34:15.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-27 22:34:15.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.118][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:34:15.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-27 22:34:15.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-27 22:34:15.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:15.128][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-27 22:34:15.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-27 22:34:15.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:15.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:34:15.150][biodb::testThat]
biodb.INFO [2024-11-27 22:34:15.152][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-27 22:34:15.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:15.154][biodb::testThat]
biodb.INFO [2024-11-27 22:34:15.171][biodb::testThat]
biodb.INFO [2024-11-27 22:34:15.172][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-27 22:34:15.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:15.174][biodb::testThat]
biodb.INFO [2024-11-27 22:34:15.189][biodb::testThat]
biodb.INFO [2024-11-27 22:34:15.190][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-27 22:34:15.192][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:15.193][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:15.197][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-11-27 22:34:16.057][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-11-27 22:34:17.642][biodb::testThat]
biodb.INFO [2024-11-27 22:34:17.643][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-27 22:34:17.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:17.646][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:17.939][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-11-27 22:34:18.383][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:18.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:18.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.387][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.388][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:18.390][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:18.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.392][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.393][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:18.395][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:18.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.397][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:34:18.399][biodb::testThat]
biodb.INFO [2024-11-27 22:34:18.400][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-11-27 22:34:18.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:18.403][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:18.405][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-27 22:34:18.472][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-27 22:34:18.475][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.477][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-27 22:34:18.492][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-27 22:34:18.494][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:34:18.495][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:34:18.497][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:34:18.499][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.500][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:18.502][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:18.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:18.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:18.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:18.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:18.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:18.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:18.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:18.529][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.533][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:18.567][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-27 22:34:18.568][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-27 22:34:18.604][biodb::testThat]
biodb.INFO [2024-11-27 22:34:18.606][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-27 22:34:18.608][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:18.610][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:18.619][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-11-27 22:34:18.621][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-11-27 22:34:18.622][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-27 22:34:18.624][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.663][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-27 22:34:18.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-11-27 22:34:18.668][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:34:18.669][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:34:18.671][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:34:18.673][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.674][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:18.675][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:18.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:18.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:18.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:18.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:18.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:18.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:18.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:18.698][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.702][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:18.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:18.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:18.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:18.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:18.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:18.736][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-27 22:34:18.737][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-27 22:34:18.738][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-11-27 22:34:18.774][biodb::testThat]
biodb.INFO [2024-11-27 22:34:18.776][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-11-27 22:34:18.777][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:18.778][biodb::testThat]
biodb.INFO [2024-11-27 22:34:18.817][biodb::testThat]
biodb.INFO [2024-11-27 22:34:18.818][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-11-27 22:34:18.819][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:18.820][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:18.823][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.825][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.827][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:18.829][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.830][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:18.832][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:18.833][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:18.834][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:18.836][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-11-27 22:34:18.860][biodb::testThat]
biodb.INFO [2024-11-27 22:34:18.862][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-11-27 22:34:18.863][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:18.864][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:18.867][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.869][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.871][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:18.873][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:18.874][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:18.875][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:18.877][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:18.878][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:18.879][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-11-27 22:34:19.110][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:19.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:19.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:19.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:19.116][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:19.117][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:19.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:19.119][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:19.121][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:19.122][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:19.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:19.124][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:34:19.125][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:34:19.127][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-27 22:34:19.134][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-27 22:34:19.135][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:34:19.137][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.139][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.141][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:34:19.148][biodb::testContext]
biodb.INFO [2024-11-27 22:34:19.150][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:19.152][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-11-27 22:34:19.154][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:19.155][biodb::testContext]
biodb.INFO [2024-11-27 22:34:19.163][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:34:19.166][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:34:19.171][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:19.172][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:34:19.174][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:34:19.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.178][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:34:19.179][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:34:19.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.184][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:34:19.185][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:34:19.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.189][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:34:19.190][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:34:19.192][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:34:19.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.196][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:34:19.197][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:34:19.198][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:34:19.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.203][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:34:19.204][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:34:19.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.209][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:34:19.210][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:34:19.211][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:34:19.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.215][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:34:19.217][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:34:19.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.227][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:34:19.228][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:34:19.229][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:34:19.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.234][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:34:19.235][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:34:19.236][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:34:19.237][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:34:19.238][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:34:19.240][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:34:19.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.243][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[2024-11-27 22:34:19.244][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:34:19.245][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:34:19.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.250][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:34:19.251][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:34:19.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.255][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:34:19.257][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:34:19.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.261][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:34:19.262][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:34:19.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.267][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:34:19.268][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:34:19.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.272][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:34:19.273][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:34:19.277][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:34:19.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.281][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:34:19.282][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:34:19.284][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:34:19.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.288][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:34:19.290][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.292][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:34:19.293][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:19.295][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.296][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.298][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.299][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.300][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:34:19.301][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:19.303][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.304][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:34:19.305][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:19.306][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.307][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.309][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:19.309][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:34:19.309][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:34:19.309][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:34:19.309][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:34:19.310][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:19.311][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.312][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.313][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:19.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.317][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.318][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.319][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:19.320][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:19.321][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.322][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.324][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:34:19.326][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.327][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:34:19.328][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.329][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:19.330][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.332][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.333][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.334][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.335][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:34:19.336][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:19.338][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.339][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:34:19.340][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:19.341][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.342][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.344][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:19.344][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:34:19.344][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:34:19.344][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:34:19.344][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:34:19.345][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:19.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.348][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:19.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.351][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.352][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.353][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.354][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:19.355][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:19.361][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.363][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.364][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:34:19.366][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.368][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:34:19.369][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.370][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:19.371][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.372][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.373][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.375][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.376][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:34:19.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:19.378][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.379][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:34:19.381][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:19.382][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.383][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.384][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.385][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:19.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.389][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:19.390][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.392][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.393][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.395][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:19.396][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:19.397][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.398][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.400][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:34:19.401][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.403][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:34:19.404][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.405][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:19.406][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.407][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.409][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.410][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.411][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:34:19.412][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:19.414][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.415][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:34:19.416][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:19.417][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.418][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.420][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.421][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:19.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.424][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:19.425][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.427][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.428][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.429][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.430][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:19.431][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:19.432][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.434][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.435][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:19.436][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.437][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[2024-11-27 22:34:19.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.443][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[2024-11-27 22:34:19.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.508][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[2024-11-27 22:34:19.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.536][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:34:19.538][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:34:19.540][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:34:19.541][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:34:19.543][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:34:19.544][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:34:19.546][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:34:19.547][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:34:19.549][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:34:19.551][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:34:19.552][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:34:19.554][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:34:19.555][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:34:19.557][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:34:19.558][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:34:19.560][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:34:19.562][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:34:19.563][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:34:19.565][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:34:19.566][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:34:19.568][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:34:19.569][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:34:19.571][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:34:19.572][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:34:19.574][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:34:19.576][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:34:19.577][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:34:19.579][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:34:19.580][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:34:19.582][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:34:19.583][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:34:19.585][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:34:19.586][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:34:19.588][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:34:19.590][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:34:19.591][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:34:19.593][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:34:19.594][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:34:19.596][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:34:19.597][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:34:19.599][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:34:19.601][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:34:19.604][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:34:19.606][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:34:19.608][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:34:19.610][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:34:19.612][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:34:19.614][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:34:19.615][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:34:19.617][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:34:19.619][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:34:19.625][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:34:19.627][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:34:19.629][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:34:19.631][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:34:19.632][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:34:19.634][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:34:19.635][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:34:19.637][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:34:19.638][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:34:19.640][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:34:19.641][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:34:19.643][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:34:19.644][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:34:19.646][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:34:19.648][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:34:19.649][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:34:19.651][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:34:19.652][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:34:19.654][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:34:19.656][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:34:19.657][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:34:19.659][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:34:19.660][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:34:19.662][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:34:19.664][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:34:19.665][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:34:19.667][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:34:19.668][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:34:19.670][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:34:19.671][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:34:19.673][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:34:19.674][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:34:19.676][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:34:19.679][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:34:19.681][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:19.682][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.684][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.722][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.DEBUG[2024-11-27 22:34:19.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.765][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[2024-11-27 22:34:19.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.780][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[2024-11-27 22:34:19.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:19.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:19.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:19.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:19.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:19.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:19.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:19.818][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[2024-11-27 22:34:19.821][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-27 22:34:19.822][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:19.825][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.826][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.827][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:19.829][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.830][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-27 22:34:19.832][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.833][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.834][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:34:19.835][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:19.836][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.838][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-27 22:34:19.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-27 22:34:19.840][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-27 22:34:19.841][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:19.842][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:19.842][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-27 22:34:19.842][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-27 22:34:19.844][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:34:19.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.847][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:19.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:19.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:19.850][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:19.852][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-27 22:34:19.852][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-27 22:34:19.853][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:19.854][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:19.855][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:19.856][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:19.862][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-27 22:34:19.864][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:34:19.865][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:34:19.867][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:34:19.869][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:34:19.872][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:19.873][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-27 22:34:19.874][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:19.876][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:19.883][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:19.885][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:19.886][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-27 22:34:19.887][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-27 22:34:19.889][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-27 22:34:19.889][self$setPropertyValue] Setting property "urls" to "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-27 22:34:19.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:19.891][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:19.892][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-27 22:34:19.893][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-27 22:34:19.894][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:19.896][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:19.898][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:19.900][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:19.903][private$addConnectorRules] Create new rule for URL "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:19.905][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:19.907][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-27 22:34:19.910][biodb::testThat]
biodb.INFO [2024-11-27 22:34:19.912][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-11-27 22:34:19.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:19.916][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:19.924][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:19.927][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:19.930][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:19.933][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:19.935][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:19.937][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:19.939][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:19.941][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:19.943][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:19.947][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-27 22:34:19.961][biodb::testThat]
biodb.INFO [2024-11-27 22:34:19.962][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-11-27 22:34:19.963][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:19.964][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:19.967][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-27 22:34:19.968][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-27 22:34:19.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:19.972][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-27 22:34:19.975][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-27 22:34:19.976][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:34:19.992][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-27 22:34:19.993][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:34:19.995][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:19.996][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:19.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:19.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:20.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:20.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:20.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:20.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:20.027][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.031][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.037][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.039][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.041][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.042][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.047][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.048][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.051][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.052][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.057][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.058][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.061][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.062][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.071][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.083][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.084][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.086][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.093][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.094][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.096][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.103][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.104][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.106][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.113][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.114][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.116][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.118][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.123][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.124][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.126][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.133][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:20.134][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:20.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:20.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:20.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.143][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:20.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:20.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.146][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:20.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:20.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.154][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.156][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.164][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.166][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.172][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.174][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.176][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.183][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:20.184][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:20.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.186][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:20.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:20.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.193][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:20.194][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:20.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.196][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:20.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:20.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.203][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:20.204][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.206][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.208][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:20.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.233][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.238][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.242][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:20.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.247][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.252][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.258][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:20.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:20.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:20.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.312][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.326][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:20.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.334][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.348][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:20.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.356][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.363][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.371][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:20.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.378][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:20.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:20.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.386][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:20.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:20.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:20.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:20.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.403][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:20.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:20.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:20.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:20.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:20.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:20.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:20.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:20.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:20.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:20.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:20.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:20.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.453][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.458][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:20.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:20.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.492][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.497][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.501][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:20.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.506][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.511][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.516][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:20.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:20.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:20.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:20.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:20.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.536][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:20.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:20.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.541][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:20.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.560][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:20.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:20.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:20.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:20.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.590][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:20.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:20.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.595][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:20.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:20.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.605][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:20.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:20.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:20.639][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-27 22:34:20.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:20.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:20.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:20.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:20.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:34:20.679][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:34:20.682][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-27 22:34:20.685][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-27 22:34:20.686][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:34:20.688][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:20.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:20.692][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:20.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:20.695][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:34:20.706][biodb::testContext]
biodb.INFO [2024-11-27 22:34:20.708][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:20.710][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-11-27 22:34:20.712][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:34:20.714][biodb::testContext]
biodb.INFO [2024-11-27 22:34:20.723][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:34:20.727][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:34:20.736][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:20.738][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:34:20.740][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:34:20.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.748][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:34:20.750][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:34:20.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.757][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:34:20.759][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:34:20.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.764][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:34:20.765][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:34:20.766][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:34:20.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.771][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:34:20.772][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:34:20.773][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:34:20.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.777][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.DEBUG[2024-11-27 22:34:20.778][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:34:20.779][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:34:20.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.783][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:34:20.785][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:34:20.786][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:34:20.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.790][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:34:20.791][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:34:20.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.796][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:34:20.797][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:34:20.798][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:34:20.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.803][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:34:20.804][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:34:20.805][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:34:20.806][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:34:20.807][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:34:20.809][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:34:20.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.813][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:34:20.814][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:34:20.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.818][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:34:20.820][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:34:20.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.824][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:34:20.825][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:34:20.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.829][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:34:20.831][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:34:20.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.835][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:34:20.836][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:34:20.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.841][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:34:20.842][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:34:20.851][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:34:20.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.856][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:34:20.857][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:34:20.859][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:34:20.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:20.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:20.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:20.863][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:34:20.865][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.866][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:34:20.868][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.869][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:20.870][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.871][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.872][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.873][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.875][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:34:20.876][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:20.877][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.878][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:34:20.880][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:20.881][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.882][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.883][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:20.883][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:34:20.883][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:34:20.883][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:34:20.883][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:34:20.885][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:20.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:20.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:20.888][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:20.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:20.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:20.891][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.893][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.894][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:20.895][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:20.896][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.897][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.899][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:34:20.901][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.902][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:34:20.903][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.904][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:20.905][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.906][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.908][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.909][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.910][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:34:20.911][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:20.913][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.914][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:34:20.915][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:20.916][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.917][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.919][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:20.919][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:34:20.919][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:34:20.919][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:34:20.919][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:34:20.920][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:20.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:20.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:20.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:20.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:20.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:20.927][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.928][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.929][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:20.930][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:20.931][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.932][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.934][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:34:20.936][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.937][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:34:20.938][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.939][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:20.940][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.942][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.943][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.944][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.945][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:34:20.946][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:20.947][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.949][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:34:20.950][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:20.951][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.952][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.953][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.954][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:20.956][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:20.957][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:20.958][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:20.959][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:20.960][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:20.961][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.962][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.964][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:20.965][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:20.966][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.967][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:20.968][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:34:20.970][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.971][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:34:20.973][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.974][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:20.984][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:20.986][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.988][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.990][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:20.992][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:34:20.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:20.996][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:20.998][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:34:21.000][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:21.002][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:21.004][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:21.006][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:21.007][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:34:21.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:21.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:21.011][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:21.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:21.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:21.014][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:21.016][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:21.017][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:21.018][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:21.019][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:21.020][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:21.022][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:21.023][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.040][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[2024-11-27 22:34:21.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.122][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:34:21.124][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:34:21.126][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:34:21.127][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:34:21.129][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:34:21.130][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:34:21.132][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:34:21.134][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:34:21.135][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:34:21.137][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:34:21.138][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:34:21.140][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:34:21.141][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:34:21.143][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:34:21.144][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:34:21.146][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:34:21.148][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:34:21.151][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:34:21.153][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:34:21.155][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:34:21.156][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:34:21.158][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:34:21.159][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:34:21.161][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:34:21.162][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:34:21.164][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:34:21.166][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:34:21.167][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:34:21.169][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:34:21.170][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:34:21.172][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:34:21.173][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:34:21.175][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:34:21.176][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:34:21.178][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:34:21.180][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:34:21.181][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:34:21.183][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:34:21.184][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:34:21.186][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:34:21.187][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:34:21.189][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:34:21.190][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:34:21.192][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:34:21.193][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:34:21.195][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:34:21.197][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:34:21.198][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:34:21.200][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:34:21.201][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:34:21.203][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:34:21.204][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:34:21.206][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:34:21.207][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:34:21.209][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:34:21.210][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:34:21.212][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:34:21.213][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:34:21.215][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:34:21.216][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:34:21.218][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:34:21.220][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:34:21.221][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:34:21.223][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:34:21.224][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:34:21.226][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:34:21.227][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:34:21.229][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:34:21.230][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:34:21.232][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:34:21.233][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:34:21.241][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:34:21.243][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:34:21.245][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:34:21.247][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:34:21.248][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:34:21.250][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:34:21.251][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:34:21.253][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:34:21.254][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:34:21.256][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:34:21.257][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:34:21.259][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:34:21.261][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:34:21.263][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:34:21.264][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:34:21.265][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.267][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.306][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[2024-11-27 22:34:21.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:34:21.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:21.411][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-27 22:34:21.413][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:21.416][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:21.417][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:34:21.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:21.419][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:34:21.421][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:21.422][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-27 22:34:21.423][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:21.424][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:34:21.426][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:34:21.427][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:34:21.428][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:21.430][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-27 22:34:21.431][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-27 22:34:21.432][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-27 22:34:21.433][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:34:21.435][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:34:21.435][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-27 22:34:21.435][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-27 22:34:21.436][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:34:21.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:21.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:21.440][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:34:21.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:34:21.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:34:21.443][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:34:21.444][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-27 22:34:21.444][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-27 22:34:21.446][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:21.447][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:21.448][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:34:21.449][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:34:21.451][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-27 22:34:21.452][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:34:21.454][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:34:21.456][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:34:21.458][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:34:21.461][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:21.463][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-27 22:34:21.464][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:21.466][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:21.468][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:21.469][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:21.470][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-27 22:34:21.472][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-27 22:34:21.473][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-27 22:34:21.473][self$setPropertyValue] Setting property "urls" to "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-27 22:34:21.474][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:34:21.475][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:34:21.476][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-27 22:34:21.478][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-27 22:34:21.479][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-27 22:34:21.481][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:21.482][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:21.484][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:21.485][private$addConnectorRules] Create new rule for URL "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-27 22:34:21.487][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:34:21.488][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-27 22:34:21.490][biodb::testThat]
biodb.INFO [2024-11-27 22:34:21.492][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-11-27 22:34:21.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:34:21.494][biodb::testThat]
biodb.DEBUG[2024-11-27 22:34:21.496][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-27 22:34:21.498][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-27 22:34:21.499][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-27 22:34:21.509][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:21.512][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:21.514][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:21.515][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:21.517][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:21.518][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:21.520][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:21.521][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:21.522][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:21.524][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:21.525][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-11-27 22:34:21.527][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-27 22:34:21.528][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-27 22:34:21.530][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:21.532][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-27 22:34:21.534][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-27 22:34:21.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:34:21.540][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-27 22:34:21.541][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:34:21.543][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:21.544][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:21.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:21.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:21.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:21.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:21.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:21.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:21.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:21.576][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:21.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:21.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.581][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:21.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:21.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.589][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:21.590][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:21.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.593][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.594][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:21.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:21.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.599][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.601][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.610][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.611][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.615][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.620][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.624][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.630][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.632][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.634][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.641][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:21.642][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:21.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.644][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:21.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.651][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:21.653][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:21.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.655][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.657][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:21.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:21.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.668][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.669][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.674][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.679][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.680][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.682][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.689][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:21.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:21.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.693][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:21.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:21.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:21.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:21.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:21.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:21.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.715][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.716][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.725][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:21.727][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:21.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.729][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:21.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:21.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.736][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:21.737][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:21.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.739][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:21.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:21.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.748][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:21.749][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:21.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.753][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:21.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:21.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:21.760][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:21.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.763][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.765][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:21.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:21.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.771][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:21.773][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.775][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.777][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:21.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:21.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:21.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:21.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:21.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:21.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.803][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.811][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.827][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:21.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.837][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.852][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:21.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:21.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:21.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.886][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.891][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:21.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.901][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.905][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.920][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:21.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:21.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:21.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.934][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:21.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:21.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.939][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:21.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:21.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:21.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:21.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:21.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:21.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.953][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:21.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:21.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:21.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:21.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.973][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:21.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:21.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:21.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:21.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:21.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:21.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:21.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.003][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.008][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.042][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.047][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.053][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.057][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.062][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.067][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.077][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.086][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:22.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.091][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.111][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:22.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.156][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:22.189][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-27 22:34:22.191][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.196][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.205][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:22.210][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:22.211][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:22.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:22.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:22.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:22.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:22.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:22.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:22.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:22.230][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-27 22:34:22.231][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-27 22:34:22.233][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:22.235][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-27 22:34:22.238][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-27 22:34:22.239][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:34:22.242][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-27 22:34:22.248][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:34:22.250][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:34:22.252][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-27 22:34:22.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:22.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:22.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:22.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:22.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:22.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:22.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:22.270][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.271][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.273][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.280][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.281][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.283][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.285][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.290][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.291][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.293][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.295][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.300][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.301][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.303][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.305][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.309][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.313][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.319][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.320][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.323][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.329][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.330][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.333][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.339][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.340][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.343][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.349][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.350][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.352][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.354][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.359][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.361][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.363][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.365][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.370][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:22.371][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:22.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.373][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:22.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:22.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.380][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:22.386][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:22.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.389][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:22.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.397][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.399][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.401][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.420][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.421][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.425][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.430][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.431][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.433][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.440][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.441][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.443][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.450][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:22.451][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.454][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.455][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-27 22:34:22.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.475][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.480][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.484][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:34:22.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.489][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.494][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-27 22:34:22.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:34:22.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-27 22:34:22.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.553][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-27 22:34:22.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.558][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.563][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-27 22:34:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.573][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.577][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.582][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-27 22:34:22.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.587][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.596][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:22.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:22.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:22.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:22.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:34:22.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:34:22.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:22.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:22.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:34:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:34:22.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.657][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.661][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.666][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:34:22.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:34:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.706][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.710][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.715][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-27 22:34:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.720][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.725][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-27 22:34:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.739][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.743][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:34:22.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:34:22.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.767][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-27 22:34:22.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:34:22.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:34:22.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:34:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.797][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.806][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.817][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-27 22:34:22.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:34:22.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:34:22.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:22.850][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-27 22:34:22.852][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.857][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.861][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:22.871][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:22.872][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:22.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:22.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:22.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:22.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:22.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:22.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:22.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:22.911][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-27 22:34:22.913][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-27 22:34:22.914][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-27 22:34:22.916][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:22.918][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:22.925][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:22.927][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:22.929][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:22.931][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:22.933][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:22.934][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:22.936][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:22.937][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:22.938][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-27 22:34:22.940][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.945][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.950][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.959][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.964][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:22.969][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:22.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:22.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:22.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:22.974][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:22.975][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:22.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:22.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:22.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:22.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:22.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:22.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:22.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:23.000][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.005][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.015][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.020][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.024][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.029][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:23.034][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-27 22:34:23.035][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:23.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:23.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:23.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:23.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:23.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:23.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:23.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:34:23.060][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-27 22:34:23.061][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-27 22:34:23.062][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-27 22:34:23.064][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:23.066][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:23.068][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-27 22:34:23.069][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-27 22:34:23.071][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-27 22:34:23.072][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-27 22:34:23.078][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-27 22:34:23.080][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-27 22:34:23.081][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-27 22:34:23.083][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-27 22:34:23.084][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-27 22:34:23.087][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.092][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.096][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.101][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.111][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.116][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:23.121][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-27 22:34:23.122][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-11-27 22:34:23.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:23.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:23.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:23.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:23.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:23.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:23.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:34:23.157][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.172][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.179][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.187][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:34:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-27 22:34:23.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-27 22:34:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:34:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:34:23.211][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-27 22:34:23.213][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-27 22:34:23.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:34:23.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:23.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:23.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:23.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:23.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:23.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:34:23.238][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:34:23.239][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-27 22:34:23.241][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-27 22:34:23.242][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:34:23.243][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:34:23.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:34:23.245][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:34:23.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:34:23.247][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:34:23.248][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
10.50 0.51 16.25