| Back to Build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-05-10 10:04:27 -0000 (Wed, 10 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6211 |
| 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 | ||||
|
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. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 193/2194 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.7.0 (landing page) Pierrick Roger
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: biodbHmdb |
| Version: 1.7.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbHmdb_1.7.0.tar.gz |
| StartedAt: 2023-05-09 09:58:34 -0000 (Tue, 09 May 2023) |
| EndedAt: 2023-05-09 09:59:50 -0000 (Tue, 09 May 2023) |
| EllapsedTime: 76.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbHmdb_1.7.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.7.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
* checking installed package size ... NOTE
installed size is 6.6Mb
sub-directories of 1Mb or more:
libs 6.0Mb
* 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 R 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘biodbHmdb.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL biodbHmdb ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘biodbHmdb’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’ g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c Tag.cpp -o Tag.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c extractXmlEntries.cpp -o extractXmlEntries.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c test-100-tag.cpp -o test-100-tag.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c test-runner.cpp -o test-runner.o g++ -std=gnu++17 -shared -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o installing to /home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
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 [2023-05-09 09:59:22.184][biodb::testContext]
biodb.INFO [2023-05-09 09:59:22.186][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:22.187][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-05-09 09:59:22.189][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:22.190][biodb::testContext]
biodb.INFO [2023-05-09 09:59:22.192][biodb::testThat]
biodb.INFO [2023-05-09 09:59:22.193][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-05-09 09:59:22.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:22.195][biodb::testThat]
biodb.INFO [2023-05-09 09:59:22.323][biodb::testContext]
biodb.INFO [2023-05-09 09:59:22.324][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:22.325][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-05-09 09:59:22.327][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:22.328][biodb::testContext]
biodb.INFO [2023-05-09 09:59:22.349][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-05-09 09:59:22.352][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-05-09 09:59:22.361][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:22.362][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-05-09 09:59:22.363][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-05-09 09:59:22.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.368][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-05-09 09:59:22.392][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-05-09 09:59:22.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.397][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-05-09 09:59:22.399][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-05-09 09:59:22.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.404][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-05-09 09:59:22.405][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-05-09 09:59:22.406][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-05-09 09:59:22.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.411][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-05-09 09:59:22.412][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-05-09 09:59:22.414][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-05-09 09:59:22.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.429][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-05-09 09:59:22.430][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-05-09 09:59:22.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.434][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[2023-05-09 09:59:22.435][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-05-09 09:59:22.436][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-05-09 09:59:22.438][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-05-09 09:59:22.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.442][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-05-09 09:59:22.444][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-05-09 09:59:22.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.449][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-05-09 09:59:22.450][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-05-09 09:59:22.451][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-05-09 09:59:22.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.456][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-05-09 09:59:22.458][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-05-09 09:59:22.459][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-05-09 09:59:22.460][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-05-09 09:59:22.462][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-05-09 09:59:22.463][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-05-09 09:59:22.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.468][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-05-09 09:59:22.469][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-05-09 09:59:22.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.474][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-05-09 09:59:22.476][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-05-09 09:59:22.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.480][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-05-09 09:59:22.482][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-05-09 09:59:22.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.487][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-05-09 09:59:22.488][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-05-09 09:59:22.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.493][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-05-09 09:59:22.494][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-05-09 09:59:22.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.499][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-05-09 09:59:22.500][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-05-09 09:59:22.505][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-05-09 09:59:22.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.508][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[2023-05-09 09:59:22.510][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-05-09 09:59:22.511][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-05-09 09:59:22.512][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-05-09 09:59:22.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.521][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-05-09 09:59:22.565][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.586][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-05-09 09:59:22.588][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.589][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:22.590][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.592][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.593][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.594][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.595][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-09 09:59:22.597][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:22.598][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.599][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-05-09 09:59:22.601][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:22.602][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.603][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.604][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:22.604][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-09 09:59:22.604][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-09 09:59:22.604][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-09 09:59:22.604][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-09 09:59:22.606][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:22.607][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.608][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.609][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:22.611][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.612][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.613][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.614][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.615][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:22.617][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:22.618][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.619][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.621][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-05-09 09:59:22.623][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.624][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-05-09 09:59:22.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.627][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:22.628][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.629][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.632][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.633][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-09 09:59:22.643][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:22.644][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.645][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-05-09 09:59:22.647][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:22.648][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.649][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.650][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:22.650][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-09 09:59:22.650][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-09 09:59:22.650][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-09 09:59:22.650][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-09 09:59:22.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:22.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.655][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:22.657][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.659][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.660][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.662][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:22.663][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:22.664][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.666][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.667][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-05-09 09:59:22.669][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.671][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-05-09 09:59:22.672][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.673][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:22.675][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.676][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.677][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.679][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.680][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-09 09:59:22.681][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:22.683][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.684][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-05-09 09:59:22.686][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:22.687][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.688][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.690][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.691][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:22.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.695][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:22.696][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.697][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.698][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.700][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.701][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:22.702][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:22.703][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.705][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.706][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-05-09 09:59:22.709][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.710][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-05-09 09:59:22.711][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.712][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:22.714][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.715][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.716][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.718][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.719][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-09 09:59:22.720][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:22.722][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.723][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-05-09 09:59:22.724][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:22.726][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.727][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:22.728][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.730][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:22.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.732][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.734][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:22.735][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:22.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:22.737][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:22.739][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.740][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:22.741][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:22.742][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:22.744][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:22.749][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:22.750][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.763][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[2023-05-09 09:59:22.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.793][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[2023-05-09 09:59:22.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.817][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[2023-05-09 09:59:22.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.823][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[2023-05-09 09:59:22.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:22.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:22.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:22.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:22.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:22.855][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-05-09 09:59:22.868][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-05-09 09:59:22.870][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-05-09 09:59:22.872][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-05-09 09:59:22.874][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-05-09 09:59:22.876][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-09 09:59:22.878][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-05-09 09:59:22.880][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-05-09 09:59:22.882][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-05-09 09:59:22.883][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-09 09:59:22.885][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-09 09:59:22.887][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-05-09 09:59:22.889][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-05-09 09:59:22.891][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-05-09 09:59:22.893][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-05-09 09:59:22.895][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-09 09:59:22.897][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-05-09 09:59:22.899][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-05-09 09:59:22.900][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-05-09 09:59:22.902][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-05-09 09:59:22.904][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-05-09 09:59:22.906][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-05-09 09:59:22.908][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-05-09 09:59:22.910][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-05-09 09:59:22.912][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-05-09 09:59:22.914][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-05-09 09:59:22.916][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-05-09 09:59:22.918][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-05-09 09:59:22.919][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-05-09 09:59:22.921][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-05-09 09:59:22.923][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-05-09 09:59:22.925][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-05-09 09:59:22.927][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-05-09 09:59:22.929][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-05-09 09:59:22.931][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-05-09 09:59:22.933][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-05-09 09:59:22.935][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-05-09 09:59:22.936][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-05-09 09:59:22.938][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-05-09 09:59:22.940][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-05-09 09:59:22.942][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-05-09 09:59:22.944][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-05-09 09:59:22.946][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-05-09 09:59:22.948][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-05-09 09:59:22.950][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-05-09 09:59:22.952][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-05-09 09:59:22.954][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-05-09 09:59:22.955][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-05-09 09:59:22.957][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-05-09 09:59:22.959][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-05-09 09:59:22.961][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-05-09 09:59:22.963][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-05-09 09:59:22.965][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-05-09 09:59:22.967][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-05-09 09:59:22.969][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-05-09 09:59:22.971][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-05-09 09:59:22.973][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-05-09 09:59:22.975][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-05-09 09:59:22.976][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-05-09 09:59:22.978][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-05-09 09:59:22.980][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-05-09 09:59:22.982][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-05-09 09:59:22.984][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-05-09 09:59:22.986][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-05-09 09:59:22.988][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-05-09 09:59:22.990][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-05-09 09:59:22.992][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-05-09 09:59:22.993][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-05-09 09:59:22.995][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-05-09 09:59:22.997][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-05-09 09:59:22.999][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-05-09 09:59:23.001][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-05-09 09:59:23.003][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-05-09 09:59:23.005][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-05-09 09:59:23.007][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-05-09 09:59:23.008][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-05-09 09:59:23.010][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-05-09 09:59:23.012][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-05-09 09:59:23.014][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-05-09 09:59:23.016][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-05-09 09:59:23.018][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-05-09 09:59:23.020][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-05-09 09:59:23.022][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-05-09 09:59:23.030][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-05-09 09:59:23.032][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-05-09 09:59:23.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:23.037][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.040][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:23.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:23.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.225][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[2023-05-09 09:59:23.227][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-05-09 09:59:23.239][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:23.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:23.243][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-05-09 09:59:23.244][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:23.246][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:23.247][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:23.248][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-05-09 09:59:23.250][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:23.251][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:23.252][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-05-09 09:59:23.254][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:23.255][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:23.256][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-05-09 09:59:23.258][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-05-09 09:59:23.259][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-05-09 09:59:23.261][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:23.262][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:23.262][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-05-09 09:59:23.262][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-05-09 09:59:23.263][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-05-09 09:59:23.265][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:23.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:23.267][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:23.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:23.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:23.271][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:23.272][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-09 09:59:23.272][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-05-09 09:59:23.273][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:23.275][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:23.276][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:23.277][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:23.285][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-05-09 09:59:23.287][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-09 09:59:23.289][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-09 09:59:23.291][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-09 09:59:23.293][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-09 09:59:23.332][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:23.334][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-05-09 09:59:23.339][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:23.344][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:23.350][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:23.351][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:23.353][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-05-09 09:59:23.355][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-05-09 09:59:23.356][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-09 09:59:23.356][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-05-09 09:59:23.357][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:23.359][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:23.360][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-05-09 09:59:23.361][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-05-09 09:59:23.363][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:23.386][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:23.387][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:23.389][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:23.390][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:23.392][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:23.393][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-05-09 09:59:23.413][biodb::testThat]
biodb.INFO [2023-05-09 09:59:23.415][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-05-09 09:59:23.416][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:23.417][biodb::testThat]
biodb.TRACE[2023-05-09 09:59:23.423][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-05-09 09:59:23.429][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:23.434][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:23.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:23.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:23.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:23.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:23.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:23.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:23.458][FUN] Functions in observer BiodbConfig: [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[2023-05-09 09:59:23.473][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:23.474][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:23.475][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.477][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:23.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:23.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.503][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:23.505][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:23.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.507][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.553][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:23.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:23.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.562][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.564][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.565][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.566][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.568][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.577][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.579][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.580][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.581][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.583][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.596][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.607][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.608][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.611][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:23.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:23.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.626][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:23.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:23.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.637][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:23.638][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:23.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.641][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.643][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:23.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.652][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.653][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.655][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.656][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.667][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.668][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.669][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.671][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.682][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:23.683][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:23.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.686][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:23.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:23.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.696][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:23.698][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:23.699][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.700][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:23.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:23.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.711][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:23.713][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:23.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.715][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:23.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:23.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.734][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:23.735][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:23.737][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.738][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:23.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:23.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.749][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:23.750][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:23.752][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.753][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:23.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.764][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:23.765][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:23.767][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.768][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.770][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:23.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:23.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:23.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:23.781][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.783][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.785][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:23.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:23.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.793][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:23.795][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.796][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.798][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.799][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:23.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:23.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:23.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:23.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:23.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:23.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.869][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.874][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.879][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:23.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.884][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.897][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.902][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:23.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:23.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:23.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.939][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:23.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.960][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:23.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.981][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:23.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.987][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:23.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:23.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.992][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:23.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:23.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:23.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:23.997][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:23.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:24.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.002][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:24.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:24.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:24.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:24.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:24.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:24.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.050][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.055][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.061][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.105][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.111][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.116][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.121][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.127][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.132][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.143][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.153][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:24.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.175][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:24.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.244][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.250][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.260][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:24.302][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-05-09 09:59:24.309][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-09 09:59:24.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-09 09:59:24.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.314][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-09 09:59:24.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-09 09:59:24.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.320][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-05-09 09:59:24.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-05-09 09:59:24.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.325][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-05-09 09:59:24.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-05-09 09:59:24.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.360][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.405][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.410][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.424][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:24.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.455][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.457][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.458][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.459][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:24.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.476][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.481][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.487][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.492][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.493][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.495][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.496][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.497][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:24.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.528][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.529][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.531][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.532][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:24.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.548][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.553][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.559][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.564][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.566][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.567][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.568][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.570][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:24.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.611][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.612][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:24.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.634][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.639][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.645][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.646][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.648][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.650][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:24.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.675][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.681][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.683][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.685][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:24.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:24.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.701][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:24.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:24.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.706][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:24.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:24.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:24.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:24.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.717][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:24.718][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:24.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.721][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.722][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:24.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:24.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.742][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.753][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.754][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.756][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.757][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:24.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:24.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.780][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.786][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.791][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.796][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.798][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.799][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.800][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:24.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.836][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.837][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:24.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.853][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.858][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.864][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.869][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.871][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.872][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.873][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.875][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:24.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.895][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.900][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.906][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.907][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.909][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.910][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.911][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:24.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.926][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.931][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.949][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.951][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.953][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:24.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.975][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.980][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.986][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.987][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.990][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:24.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:24.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:24.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:24.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.022][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.023][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.025][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.026][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.059][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.060][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.061][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.063][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.079][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.084][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.090][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.095][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.097][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.099][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.101][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.123][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:25.124][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:25.125][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.127][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.134][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.136][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.137][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.138][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.146][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.147][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.149][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.150][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.161][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.162][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.169][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.171][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.172][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.173][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.181][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.182][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.184][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.185][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.193][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.194][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.195][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.197][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.204][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.206][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.207][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.208][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.216][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:25.217][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:25.219][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.220][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.227][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:25.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:25.230][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.231][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.239][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.240][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.243][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.251][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.253][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.255][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.262][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:25.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:25.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.266][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.274][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:25.275][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:25.277][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.278][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.285][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:25.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:25.295][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.297][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.304][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:25.305][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:25.307][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.308][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.316][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:25.317][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:25.319][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.320][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.328][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:25.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:25.330][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.332][ef$get] fields variable is a list.
biodb.INFO [2023-05-09 09:59:25.340][biodb::testThat]
biodb.INFO [2023-05-09 09:59:25.342][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-05-09 09:59:25.343][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:25.344][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:25.363][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-05-09 09:59:25.373][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2023-05-09 09:59:25.378][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-05-09 09:59:25.380][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-05-09 09:59:25.381][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-05-09 09:59:25.383][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-05-09 09:59:25.385][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-05-09 09:59:25.387][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-05-09 09:59:25.390][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-05-09 09:59:25.392][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-05-09 09:59:25.393][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-05-09 09:59:25.395][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker1e9be45579972amarker".
biodb.TRACE[2023-05-09 09:59:25.397][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-05-09 09:59:25.398][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-05-09 09:59:25.400][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-05-09 09:59:25.402][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-05-09 09:59:25.403][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2023-05-09 09:59:25.405][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-05-09 09:59:25.407][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2023-05-09 09:59:25.410][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-05-09 09:59:25.411][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-05-09 09:59:25.413][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-05-09 09:59:25.415][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2023-05-09 09:59:25.423][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/entry_1.xml, /home/biocbuild/.cache/R/biodb/tmp/entry_2.xml".
biodb.TRACE[2023-05-09 09:59:25.425][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-05-09 09:59:25.426][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-05-09 09:59:25.427][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-05-09 09:59:25.430][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker1e9be431ec3ad1marker".
biodb.TRACE[2023-05-09 09:59:25.431][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-05-09 09:59:25.433][self$addFilesToCache] Done adding files.
biodb.TRACE[2023-05-09 09:59:25.435][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-05-09 09:59:25.436][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-09 09:59:25.439][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-05-09 09:59:25.440][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-09 09:59:25.509][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:25.511][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:25.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:25.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:25.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:25.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:25.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:25.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:25.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-09 09:59:25.532][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:25.533][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:25.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.536][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:25.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:25.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.547][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:25.548][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:25.549][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.551][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.552][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:25.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:25.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.562][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.563][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.566][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.568][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.577][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.578][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.580][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.581][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.583][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.596][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.607][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.608][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.611][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:25.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:25.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.626][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:25.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:25.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.637][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:25.639][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:25.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.641][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.643][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:25.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:25.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.660][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.662][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.663][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.664][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.666][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.675][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.677][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.678][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.680][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.682][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.691][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:25.692][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:25.694][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.695][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:25.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:25.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.706][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.707][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.710][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:25.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:25.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.721][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.723][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.724][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.725][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:25.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:25.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:25.739][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.741][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:25.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:25.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.752][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:25.754][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:25.755][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.756][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:25.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:25.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.767][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:25.769][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:25.770][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.771][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:25.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:25.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.782][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:25.784][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:25.785][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.786][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.797][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:25.799][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.800][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.802][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.804][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:25.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:25.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:25.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:25.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:25.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:25.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:25.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.853][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.858][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.864][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:25.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.870][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.875][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.881][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:25.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:25.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:25.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.926][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.938][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:25.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.967][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:25.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.973][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:25.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:25.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.978][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:25.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:25.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:25.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:25.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:25.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:25.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:25.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:25.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:25.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:26.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:26.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:26.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:26.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:26.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:26.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:26.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.046][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:26.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:26.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:26.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:26.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.056][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:26.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:26.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:26.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:26.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:26.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:26.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:26.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.093][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:26.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:26.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.098][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:26.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:26.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.104][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:26.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:26.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.109][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.114][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.119][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:26.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:26.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.129][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:26.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:26.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:26.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:26.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.140][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:26.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.161][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:26.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.177][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.210][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:26.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.215][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:26.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:26.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.226][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:26.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:26.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:26.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:26.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.268][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-05-09 09:59:26.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-05-09 09:59:26.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-05-09 09:59:26.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-05-09 09:59:26.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-05-09 09:59:26.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-05-09 09:59:26.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-05-09 09:59:26.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-05-09 09:59:26.294][biodb::testThat]
biodb.INFO [2023-05-09 09:59:26.295][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-05-09 09:59:26.296][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:26.298][biodb::testThat]
biodb.TRACE[2023-05-09 09:59:26.301][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.303][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.305][ef$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.307][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-05-09 09:59:26.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.371][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-05-09 09:59:26.383][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-05-09 09:59:26.384][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-09 09:59:26.386][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-09 09:59:26.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.390][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.392][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:26.393][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.395][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:26.400][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:26.401][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:26.403][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:26.404][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:26.406][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:26.407][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-09 09:59:26.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.420][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.431][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:26.433][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:26.434][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-05-09 09:59:26.453][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.454][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.457][ef$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.459][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-05-09 09:59:26.478][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.483][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.489][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.496][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[2023-05-09 09:59:26.586][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-09 09:59:26.587][private$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[2023-05-09 09:59:26.589][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-05-09 09:59:26.608][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.610][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.611][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:26.613][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.614][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:26.639][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:26.640][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:26.641][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:26.650][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:26.652][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:26.653][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-09 09:59:26.655][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.661][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.666][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.671][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:26.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:26.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.676][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:26.678][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:26.679][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-05-09 09:59:26.698][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.699][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.700][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.702][ef$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.703][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2023-05-09 09:59:26.723][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.728][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.733][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.741][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2023-05-09 09:59:26.752][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2023-05-09 09:59:26.753][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2023-05-09 09:59:26.755][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2023-05-09 09:59:26.757][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.759][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.761][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:26.762][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.764][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:26.769][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:26.770][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:26.772][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:26.773][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:26.774][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:26.775][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-09 09:59:26.778][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.783][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.789][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.794][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:26.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.799][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:26.801][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:26.802][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-05-09 09:59:26.851][biodb::testThat]
biodb.INFO [2023-05-09 09:59:26.853][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-05-09 09:59:26.854][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:26.855][biodb::testThat]
biodb.TRACE[2023-05-09 09:59:26.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.916][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-05-09 09:59:26.917][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-09 09:59:26.918][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-09 09:59:26.921][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.923][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.924][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:26.926][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:26.928][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:26.933][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:26.934][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:26.936][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:26.937][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:26.938][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:26.939][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-09 09:59:26.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:26.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:26.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:26.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:26.963][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:26.964][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-05-09 09:59:26.985][biodb::testThat]
biodb.INFO [2023-05-09 09:59:26.986][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-05-09 09:59:26.987][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:26.989][biodb::testThat]
biodb.TRACE[2023-05-09 09:59:27.030][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.035][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-05-09 09:59:27.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-05-09 09:59:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-05-09 09:59:27.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-05-09 09:59:27.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.109][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.114][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-09 09:59:27.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.119][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-05-09 09:59:27.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-05-09 09:59:27.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-05-09 09:59:27.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-05-09 09:59:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-05-09 09:59:27.133][biodb::testThat]
biodb.INFO [2023-05-09 09:59:27.134][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-05-09 09:59:27.136][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:27.137][biodb::testThat]
biodb.INFO [2023-05-09 09:59:27.151][biodb::testThat]
biodb.INFO [2023-05-09 09:59:27.152][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-05-09 09:59:27.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:27.155][biodb::testThat]
biodb.INFO [2023-05-09 09:59:27.161][biodb::testThat]
biodb.INFO [2023-05-09 09:59:27.162][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-05-09 09:59:27.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:27.165][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:27.169][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-05-09 09:59:30.117][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-05-09 09:59:30.630][biodb::testThat]
biodb.INFO [2023-05-09 09:59:30.631][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-05-09 09:59:30.632][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:30.634][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:32.355][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-05-09 09:59:32.855][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:32.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:32.859][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:32.860][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:32.862][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:32.863][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:32.865][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:32.866][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:32.867][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:32.869][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:32.870][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:32.872][ef$get] fields variable is a list.
biodb.INFO [2023-05-09 09:59:32.874][biodb::testThat]
biodb.INFO [2023-05-09 09:59:32.876][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-05-09 09:59:32.877][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:32.879][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:32.882][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-05-09 09:59:32.972][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-09 09:59:32.974][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:32.976][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-09 09:59:32.999][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-05-09 09:59:33.001][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-05-09 09:59:33.003][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-05-09 09:59:33.004][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-09 09:59:33.006][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.030][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:33.032][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:33.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:33.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:33.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:33.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.057][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.TRACE[2023-05-09 09:59:33.059][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.065][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:33.106][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-05-09 09:59:33.107][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-05-09 09:59:33.128][biodb::testThat]
biodb.INFO [2023-05-09 09:59:33.129][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-05-09 09:59:33.131][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:33.132][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:33.142][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-05-09 09:59:33.143][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-05-09 09:59:33.145][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-09 09:59:33.147][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.149][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-09 09:59:33.152][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-05-09 09:59:33.154][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-05-09 09:59:33.155][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-05-09 09:59:33.157][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-09 09:59:33.159][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.193][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:33.195][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:33.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:33.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:33.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:33.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-09 09:59:33.214][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.220][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:33.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:33.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:33.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:33.261][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-05-09 09:59:33.262][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-05-09 09:59:33.264][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-05-09 09:59:33.280][biodb::testThat]
biodb.INFO [2023-05-09 09:59:33.282][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-05-09 09:59:33.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:33.284][biodb::testThat]
biodb.INFO [2023-05-09 09:59:33.312][biodb::testThat]
biodb.INFO [2023-05-09 09:59:33.321][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-05-09 09:59:33.323][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:33.324][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:33.328][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.330][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.332][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:33.334][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.335][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:33.341][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:33.343][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:33.344][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:33.346][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-05-09 09:59:33.355][biodb::testThat]
biodb.INFO [2023-05-09 09:59:33.356][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-05-09 09:59:33.357][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:33.359][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:33.363][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.365][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.367][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:33.369][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:33.370][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:33.376][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:33.377][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:33.379][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:33.380][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-05-09 09:59:33.397][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:33.399][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:33.400][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.401][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.403][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:33.404][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:33.406][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.407][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:33.409][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:33.410][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:33.412][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:33.413][ef$get] fields variable is a list.
biodb.INFO [2023-05-09 09:59:33.414][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-05-09 09:59:33.416][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-05-09 09:59:33.427][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-05-09 09:59:33.428][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-05-09 09:59:33.430][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:33.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:33.432][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.435][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-05-09 09:59:33.441][biodb::testContext]
biodb.INFO [2023-05-09 09:59:33.443][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:33.444][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-05-09 09:59:33.446][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:33.447][biodb::testContext]
biodb.INFO [2023-05-09 09:59:33.464][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-05-09 09:59:33.467][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-05-09 09:59:33.472][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:33.474][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-05-09 09:59:33.475][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-05-09 09:59:33.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.481][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-05-09 09:59:33.482][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-05-09 09:59:33.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.486][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[2023-05-09 09:59:33.488][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-05-09 09:59:33.489][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-05-09 09:59:33.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.494][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-05-09 09:59:33.496][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-05-09 09:59:33.497][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-05-09 09:59:33.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.503][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-05-09 09:59:33.504][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-05-09 09:59:33.506][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-05-09 09:59:33.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.511][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-05-09 09:59:33.513][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-05-09 09:59:33.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.518][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-05-09 09:59:33.520][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-05-09 09:59:33.521][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-05-09 09:59:33.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.526][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-05-09 09:59:33.528][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-05-09 09:59:33.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.533][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-05-09 09:59:33.535][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-05-09 09:59:33.536][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-05-09 09:59:33.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.542][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-05-09 09:59:33.543][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-05-09 09:59:33.545][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-05-09 09:59:33.546][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-05-09 09:59:33.548][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-05-09 09:59:33.549][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-05-09 09:59:33.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.554][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-05-09 09:59:33.556][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-05-09 09:59:33.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.561][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-05-09 09:59:33.563][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-05-09 09:59:33.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.568][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-05-09 09:59:33.570][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-05-09 09:59:33.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.575][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-05-09 09:59:33.577][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-05-09 09:59:33.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.582][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-05-09 09:59:33.584][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-05-09 09:59:33.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.589][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-05-09 09:59:33.590][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-05-09 09:59:33.595][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-05-09 09:59:33.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.608][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-05-09 09:59:33.610][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-05-09 09:59:33.612][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-05-09 09:59:33.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.617][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-05-09 09:59:33.620][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.621][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-05-09 09:59:33.623][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.624][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:33.626][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.627][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.629][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.630][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.632][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-09 09:59:33.633][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:33.635][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.636][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-05-09 09:59:33.638][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:33.639][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.641][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.642][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:33.642][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-09 09:59:33.642][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-09 09:59:33.642][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-09 09:59:33.642][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-09 09:59:33.644][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:33.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.646][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.648][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:33.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.652][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.653][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.655][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:33.656][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:33.658][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.659][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.661][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-05-09 09:59:33.663][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.665][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-05-09 09:59:33.666][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.668][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:33.669][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.671][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.672][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.674][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.675][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-09 09:59:33.677][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:33.678][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.680][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-05-09 09:59:33.681][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:33.682][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.684][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.685][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:33.685][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-09 09:59:33.685][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-09 09:59:33.685][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-09 09:59:33.685][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-09 09:59:33.687][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:33.688][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.690][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.691][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:33.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.695][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.697][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.698][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:33.699][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:33.701][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.702][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.704][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-05-09 09:59:33.706][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.708][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-05-09 09:59:33.709][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.711][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:33.712][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.714][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.715][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.717][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.718][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-09 09:59:33.720][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:33.721][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.722][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-05-09 09:59:33.724][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:33.725][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.727][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.728][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.730][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:33.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.733][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.734][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:33.735][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.738][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.747][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.749][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:33.750][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:33.752][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.753][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.755][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-05-09 09:59:33.757][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.759][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-05-09 09:59:33.760][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.762][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:33.763][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.765][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.766][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.768][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.769][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-09 09:59:33.771][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:33.772][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.774][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-05-09 09:59:33.775][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:33.777][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.778][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:33.780][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.781][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:33.783][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.784][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.785][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:33.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:33.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:33.790][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:33.791][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.792][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:33.794][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:33.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:33.797][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:33.799][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:33.800][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.801][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[2023-05-09 09:59:33.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.834][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[2023-05-09 09:59:33.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:33.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:33.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:33.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:33.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:33.922][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-05-09 09:59:33.924][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-05-09 09:59:33.926][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-05-09 09:59:33.928][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-05-09 09:59:33.930][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-05-09 09:59:33.932][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-09 09:59:33.934][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-05-09 09:59:33.936][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-05-09 09:59:33.938][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-05-09 09:59:33.940][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-09 09:59:33.942][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-09 09:59:33.944][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-05-09 09:59:33.946][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-05-09 09:59:33.948][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-05-09 09:59:33.950][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-05-09 09:59:33.952][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-09 09:59:33.954][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-05-09 09:59:33.956][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-05-09 09:59:33.958][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-05-09 09:59:33.960][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-05-09 09:59:33.962][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-05-09 09:59:33.964][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-05-09 09:59:33.966][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-05-09 09:59:33.969][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-05-09 09:59:33.971][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-05-09 09:59:33.973][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-05-09 09:59:33.975][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-05-09 09:59:33.977][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-05-09 09:59:33.979][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-05-09 09:59:33.981][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-05-09 09:59:33.983][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-05-09 09:59:33.985][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-05-09 09:59:33.987][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-05-09 09:59:33.989][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-05-09 09:59:33.991][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-05-09 09:59:33.993][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-05-09 09:59:33.995][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-05-09 09:59:33.997][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-05-09 09:59:33.999][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-05-09 09:59:34.001][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-05-09 09:59:34.003][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-05-09 09:59:34.005][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-05-09 09:59:34.007][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-05-09 09:59:34.009][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-05-09 09:59:34.020][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-05-09 09:59:34.022][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-05-09 09:59:34.024][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-05-09 09:59:34.026][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-05-09 09:59:34.028][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-05-09 09:59:34.030][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-05-09 09:59:34.032][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-05-09 09:59:34.034][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-05-09 09:59:34.036][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-05-09 09:59:34.038][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-05-09 09:59:34.040][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-05-09 09:59:34.042][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-05-09 09:59:34.044][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-05-09 09:59:34.047][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-05-09 09:59:34.049][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-05-09 09:59:34.051][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-05-09 09:59:34.053][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-05-09 09:59:34.055][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-05-09 09:59:34.057][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-05-09 09:59:34.059][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-05-09 09:59:34.061][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-05-09 09:59:34.063][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-05-09 09:59:34.065][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-05-09 09:59:34.067][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-05-09 09:59:34.069][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-05-09 09:59:34.071][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-05-09 09:59:34.073][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-05-09 09:59:34.075][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-05-09 09:59:34.077][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-05-09 09:59:34.079][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-05-09 09:59:34.081][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-05-09 09:59:34.083][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-05-09 09:59:34.085][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-05-09 09:59:34.087][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-05-09 09:59:34.089][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-05-09 09:59:34.092][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-05-09 09:59:34.094][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-05-09 09:59:34.096][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-05-09 09:59:34.098][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-05-09 09:59:34.100][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-05-09 09:59:34.102][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-05-09 09:59:34.104][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:34.105][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.107][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:34.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:34.276][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-05-09 09:59:34.278][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:34.288][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:34.290][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-05-09 09:59:34.291][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:34.293][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:34.294][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:34.296][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-05-09 09:59:34.297][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:34.299][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:34.300][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-05-09 09:59:34.302][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:34.303][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:34.305][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-05-09 09:59:34.306][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-05-09 09:59:34.308][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-05-09 09:59:34.309][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:34.311][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:34.311][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-05-09 09:59:34.311][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-05-09 09:59:34.312][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-05-09 09:59:34.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:34.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:34.317][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:34.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:34.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:34.321][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:34.322][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-09 09:59:34.322][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-05-09 09:59:34.324][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:34.325][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:34.327][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:34.328][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:34.330][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-05-09 09:59:34.332][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-09 09:59:34.334][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-09 09:59:34.337][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-09 09:59:34.339][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-09 09:59:34.343][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:34.345][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-05-09 09:59:34.346][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:34.349][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:34.350][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:34.352][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:34.354][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-05-09 09:59:34.355][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-05-09 09:59:34.357][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-09 09:59:34.357][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-05-09 09:59:34.358][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:34.359][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:34.361][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-05-09 09:59:34.362][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-05-09 09:59:34.364][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:34.366][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:34.367][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:34.369][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:34.371][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:34.373][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:34.374][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-05-09 09:59:34.376][biodb::testThat]
biodb.INFO [2023-05-09 09:59:34.377][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-05-09 09:59:34.379][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:34.380][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:34.386][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:34.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:34.390][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:34.392][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:34.393][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:34.399][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:34.401][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:34.402][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:34.403][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:34.407][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-05-09 09:59:34.410][biodb::testThat]
biodb.INFO [2023-05-09 09:59:34.412][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-05-09 09:59:34.413][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:34.414][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:34.417][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-05-09 09:59:34.419][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-09 09:59:34.429][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:34.432][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-09 09:59:34.434][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-05-09 09:59:34.436][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-09 09:59:34.438][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-05-09 09:59:34.440][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-09 09:59:34.464][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:34.465][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:34.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:34.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:34.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:34.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:34.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:34.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:34.482][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.TRACE[2023-05-09 09:59:34.487][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:34.488][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:34.490][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.491][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:34.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:34.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.503][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:34.504][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:34.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.507][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.509][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:34.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:34.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.519][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.520][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.522][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.523][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.528][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.540][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.542][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.545][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.547][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.557][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.559][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.560][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.562][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.590][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.592][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.594][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.595][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.607][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:34.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:34.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.612][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:34.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.624][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:34.626][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:34.627][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.629][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.631][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:34.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:34.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.641][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.642][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.644][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.645][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.647][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.657][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.659][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.662][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.674][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:34.675][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:34.677][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.678][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.680][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:34.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:34.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.689][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:34.691][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:34.692][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.694][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:34.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:34.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:34.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:34.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.710][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:34.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:34.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.729][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:34.731][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:34.732][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.733][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:34.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:34.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.745][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:34.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:34.748][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.749][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:34.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.760][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:34.762][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:34.763][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.765][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.767][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:34.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:34.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.776][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:34.778][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:34.779][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.780][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:34.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:34.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.792][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:34.793][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.795][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.796][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.798][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:34.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:34.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:34.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:34.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:34.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:34.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:34.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.825][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.831][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:34.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.843][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.848][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.854][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:34.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:34.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.909][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:34.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:34.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.939][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:34.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.956][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:34.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:34.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.962][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:34.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:34.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:34.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:34.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:34.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.979][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:34.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:34.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.985][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:34.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:34.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:34.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:35.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:35.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:35.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:35.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:35.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:35.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.040][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:35.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:35.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:35.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:35.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:35.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:35.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:35.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:35.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.075][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.087][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:35.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:35.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.093][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:35.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.099][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:35.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:35.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.105][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:35.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:35.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.110][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:35.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:35.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:35.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:35.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.122][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:35.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:35.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:35.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.142][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:35.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:35.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:35.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.171][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:35.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.215][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:35.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:35.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:35.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:35.302][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-05-09 09:59:35.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:35.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-05-09 09:59:35.324][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-05-09 09:59:35.326][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-05-09 09:59:35.327][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-05-09 09:59:35.329][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-05-09 09:59:35.330][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:35.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:35.333][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.335][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-05-09 09:59:35.342][biodb::testContext]
biodb.INFO [2023-05-09 09:59:35.343][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:35.345][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-05-09 09:59:35.346][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-09 09:59:35.348][biodb::testContext]
biodb.INFO [2023-05-09 09:59:35.357][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-05-09 09:59:35.359][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-05-09 09:59:35.364][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:35.366][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-05-09 09:59:35.367][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-05-09 09:59:35.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.373][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-05-09 09:59:35.374][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-05-09 09:59:35.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.379][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-05-09 09:59:35.381][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-05-09 09:59:35.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.385][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[2023-05-09 09:59:35.386][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-05-09 09:59:35.388][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-05-09 09:59:35.389][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-05-09 09:59:35.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.395][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-05-09 09:59:35.396][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-05-09 09:59:35.398][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-05-09 09:59:35.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.401][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[2023-05-09 09:59:35.403][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-05-09 09:59:35.404][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-05-09 09:59:35.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.410][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-05-09 09:59:35.411][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-05-09 09:59:35.413][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-05-09 09:59:35.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.418][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-05-09 09:59:35.419][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-05-09 09:59:35.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.433][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-05-09 09:59:35.435][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-05-09 09:59:35.437][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-05-09 09:59:35.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.442][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-05-09 09:59:35.443][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-05-09 09:59:35.445][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-05-09 09:59:35.446][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-05-09 09:59:35.448][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-05-09 09:59:35.449][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-05-09 09:59:35.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.455][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-05-09 09:59:35.456][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-05-09 09:59:35.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.460][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[2023-05-09 09:59:35.462][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-05-09 09:59:35.463][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-05-09 09:59:35.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.468][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-05-09 09:59:35.470][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-05-09 09:59:35.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.475][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-05-09 09:59:35.477][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-05-09 09:59:35.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.482][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-05-09 09:59:35.484][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-05-09 09:59:35.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.489][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-05-09 09:59:35.490][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-05-09 09:59:35.495][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-05-09 09:59:35.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.500][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-05-09 09:59:35.502][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-05-09 09:59:35.503][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-05-09 09:59:35.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.509][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-05-09 09:59:35.512][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.513][self$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[2023-05-09 09:59:35.515][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.516][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:35.517][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.519][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.520][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.522][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.523][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-09 09:59:35.525][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:35.526][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.528][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-05-09 09:59:35.529][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:35.531][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.532][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.533][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:35.533][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-09 09:59:35.533][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-09 09:59:35.533][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-09 09:59:35.533][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-09 09:59:35.535][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:35.536][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:35.541][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.542][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.543][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.545][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.546][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:35.547][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:35.549][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.550][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.552][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-05-09 09:59:35.554][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.556][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-05-09 09:59:35.557][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.559][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:35.560][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.570][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.571][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.573][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.575][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-09 09:59:35.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:35.578][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.579][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-05-09 09:59:35.580][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:35.582][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.583][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.585][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:35.585][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-09 09:59:35.585][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-09 09:59:35.585][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-09 09:59:35.585][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-09 09:59:35.586][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:35.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:35.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.595][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.596][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.598][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:35.599][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:35.600][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.602][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.604][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-05-09 09:59:35.606][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.608][self$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[2023-05-09 09:59:35.609][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.611][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:35.612][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.613][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.615][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.616][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.618][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-09 09:59:35.619][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:35.621][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.622][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-05-09 09:59:35.624][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:35.625][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.627][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.628][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.630][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:35.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.634][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:35.635][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.637][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.638][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.639][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.641][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:35.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:35.644][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.645][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.647][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-05-09 09:59:35.649][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.651][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-05-09 09:59:35.652][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:35.655][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.656][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.658][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.659][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.661][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-09 09:59:35.662][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:35.664][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.665][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-05-09 09:59:35.667][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:35.668][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.670][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:35.671][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.673][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-09 09:59:35.674][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.677][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:35.678][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:35.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:35.681][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:35.682][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.684][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:35.685][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:35.686][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:35.688][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:35.690][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:35.691][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.740][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[2023-05-09 09:59:35.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.773][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[2023-05-09 09:59:35.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:35.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:35.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:35.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:35.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:35.812][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[2023-05-09 09:59:35.813][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-05-09 09:59:35.816][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-05-09 09:59:35.818][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-05-09 09:59:35.820][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-05-09 09:59:35.822][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-05-09 09:59:35.824][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-09 09:59:35.826][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-05-09 09:59:35.828][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-05-09 09:59:35.830][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-05-09 09:59:35.840][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-09 09:59:35.843][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-09 09:59:35.845][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-05-09 09:59:35.847][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-05-09 09:59:35.849][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-05-09 09:59:35.852][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-05-09 09:59:35.854][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-09 09:59:35.856][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-05-09 09:59:35.858][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-05-09 09:59:35.860][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-05-09 09:59:35.862][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-05-09 09:59:35.864][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-05-09 09:59:35.867][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-05-09 09:59:35.869][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-05-09 09:59:35.871][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-05-09 09:59:35.873][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-05-09 09:59:35.875][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-05-09 09:59:35.877][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-05-09 09:59:35.879][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-05-09 09:59:35.882][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-05-09 09:59:35.884][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-05-09 09:59:35.886][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-05-09 09:59:35.888][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-05-09 09:59:35.890][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-05-09 09:59:35.892][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-05-09 09:59:35.894][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-05-09 09:59:35.896][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-05-09 09:59:35.899][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-05-09 09:59:35.901][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-05-09 09:59:35.903][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-05-09 09:59:35.905][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-05-09 09:59:35.907][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-05-09 09:59:35.909][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-05-09 09:59:35.911][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-05-09 09:59:35.914][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-05-09 09:59:35.916][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-05-09 09:59:35.918][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-05-09 09:59:35.920][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-05-09 09:59:35.922][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-05-09 09:59:35.924][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-05-09 09:59:35.926][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-05-09 09:59:35.928][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-05-09 09:59:35.931][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-05-09 09:59:35.933][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-05-09 09:59:35.935][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-05-09 09:59:35.937][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-05-09 09:59:35.939][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-05-09 09:59:35.941][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-05-09 09:59:35.943][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-05-09 09:59:35.945][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-05-09 09:59:35.947][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-05-09 09:59:35.950][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-05-09 09:59:35.952][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-05-09 09:59:35.954][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-05-09 09:59:35.956][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-05-09 09:59:35.958][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-05-09 09:59:35.961][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-05-09 09:59:35.963][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-05-09 09:59:35.965][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-05-09 09:59:35.967][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-05-09 09:59:35.969][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-05-09 09:59:35.980][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-05-09 09:59:35.982][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-05-09 09:59:35.984][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-05-09 09:59:35.986][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-05-09 09:59:35.989][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-05-09 09:59:35.991][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-05-09 09:59:35.993][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-05-09 09:59:35.995][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-05-09 09:59:35.997][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-05-09 09:59:35.999][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-05-09 09:59:36.001][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-05-09 09:59:36.004][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-05-09 09:59:36.006][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-05-09 09:59:36.008][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-05-09 09:59:36.010][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-05-09 09:59:36.012][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-09 09:59:36.013][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.016][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.073][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[2023-05-09 09:59:36.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.091][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[2023-05-09 09:59:36.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.149][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[2023-05-09 09:59:36.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-09 09:59:36.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:36.191][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-05-09 09:59:36.193][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:36.196][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:36.198][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-05-09 09:59:36.200][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:36.201][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-09 09:59:36.203][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:36.204][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-05-09 09:59:36.206][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:36.208][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-09 09:59:36.209][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-05-09 09:59:36.211][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-09 09:59:36.212][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:36.214][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-05-09 09:59:36.215][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-05-09 09:59:36.217][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-05-09 09:59:36.219][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-05-09 09:59:36.220][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-09 09:59:36.220][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-05-09 09:59:36.220][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-05-09 09:59:36.222][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-05-09 09:59:36.223][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:36.227][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:36.230][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-09 09:59:36.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-09 09:59:36.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-09 09:59:36.235][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-09 09:59:36.236][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-09 09:59:36.236][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-05-09 09:59:36.238][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:36.239][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:36.241][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-05-09 09:59:36.242][self$setPropertyValue]
biodb.DEBUG[2023-05-09 09:59:36.244][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-05-09 09:59:36.247][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-09 09:59:36.250][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-09 09:59:36.252][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-09 09:59:36.272][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-09 09:59:36.278][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:36.279][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-05-09 09:59:36.281][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:36.283][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:36.285][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:36.287][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:36.289][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-05-09 09:59:36.290][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-05-09 09:59:36.292][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-09 09:59:36.292][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-05-09 09:59:36.293][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-09 09:59:36.295][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-09 09:59:36.296][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-05-09 09:59:36.297][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-05-09 09:59:36.299][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-09 09:59:36.301][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:36.303][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:36.305][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:36.307][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-09 09:59:36.309][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-09 09:59:36.310][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-05-09 09:59:36.313][biodb::testThat]
biodb.INFO [2023-05-09 09:59:36.314][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-05-09 09:59:36.316][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-09 09:59:36.317][biodb::testThat]
biodb.DEBUG[2023-05-09 09:59:36.332][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-09 09:59:36.333][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-05-09 09:59:36.335][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-05-09 09:59:36.340][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:36.342][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:36.344][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:36.346][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:36.348][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:36.353][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:36.355][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:36.357][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:36.358][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:36.360][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:36.361][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-05-09 09:59:36.364][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-05-09 09:59:36.365][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-09 09:59:36.368][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:36.370][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-09 09:59:36.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-05-09 09:59:36.375][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-09 09:59:36.377][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-05-09 09:59:36.379][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-09 09:59:36.403][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:36.405][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:36.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:36.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:36.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:36.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:36.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:36.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:36.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-09 09:59:36.436][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:36.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:36.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.440][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:36.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:36.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.452][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:36.453][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:36.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.456][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:36.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:36.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.468][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.469][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.471][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.472][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.474][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.484][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.485][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.487][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.488][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.490][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.503][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.504][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.516][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.517][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.519][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.520][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.531][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.533][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.534][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.536][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.555][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:36.557][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:36.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.560][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.562][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:36.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:36.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.572][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.573][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.575][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.576][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.578][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.587][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.589][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.590][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.592][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.594][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.603][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:36.605][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:36.606][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.608][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:36.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:36.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.619][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:36.621][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:36.622][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.623][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:36.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:36.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.639][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.650][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.652][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.655][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.666][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:36.668][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:36.669][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.670][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:36.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:36.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.681][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:36.683][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:36.692][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.694][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.696][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:36.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:36.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.705][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:36.707][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:36.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.710][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:36.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.721][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:36.723][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.724][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.726][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.728][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:36.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:36.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:36.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:36.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:36.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:36.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:36.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.755][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.761][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.767][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.773][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.778][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.784][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:36.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.833][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.839][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.845][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:36.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.863][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:36.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.868][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.880][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:36.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:36.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:36.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:36.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:36.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:36.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:36.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.903][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:36.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:36.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:36.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:36.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:36.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:36.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:36.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:36.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:36.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:36.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:36.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:36.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:36.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.964][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.970][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.975][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:36.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:36.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:36.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.017][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.022][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.028][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.034][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.040][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.051][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:37.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:37.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:37.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:37.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.062][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:37.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:37.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.068][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:37.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.098][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:37.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.114][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:37.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:37.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:37.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.157][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:37.200][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-05-09 09:59:37.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.413][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:37.418][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:37.420][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:37.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:37.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:37.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:37.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:37.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:37.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:37.434][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[2023-05-09 09:59:37.436][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-05-09 09:59:37.437][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-09 09:59:37.440][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:37.442][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-09 09:59:37.444][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-05-09 09:59:37.446][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-09 09:59:37.448][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-05-09 09:59:37.450][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-09 09:59:37.473][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-09 09:59:37.474][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-09 09:59:37.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:37.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:37.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:37.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:37.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:37.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:37.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-09 09:59:37.495][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.498][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.499][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.510][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.511][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.513][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.514][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.516][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:37.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.525][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.526][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.528][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.529][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.531][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.540][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.541][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.544][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.558][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.559][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.571][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.572][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.575][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.587][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:37.589][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:37.590][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.592][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.594][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:37.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:37.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.604][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.605][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.607][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.608][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.610][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:37.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.620][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.622][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.623][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.625][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.627][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.637][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.639][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.642][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.654][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:37.656][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:37.657][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.659][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.661][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:37.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.671][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:37.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:37.674][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.675][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:37.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:37.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.688][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.689][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.691][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.692][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.704][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:37.706][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:37.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.709][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:37.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:37.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.721][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.725][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.726][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:37.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:37.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.738][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.740][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.741][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.743][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:37.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:37.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.759][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:37.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.772][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:37.773][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.775][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.776][ef$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.778][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-09 09:59:37.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:37.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:37.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.807][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.814][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.820][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-09 09:59:37.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.826][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.833][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.839][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-09 09:59:37.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-09 09:59:37.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-09 09:59:37.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.895][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-09 09:59:37.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.908][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-09 09:59:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.927][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.938][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-09 09:59:37.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.944][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.955][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:37.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:37.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:37.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:37.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-09 09:59:37.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-09 09:59:37.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:37.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:37.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:37.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:37.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-09 09:59:37.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-09 09:59:37.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:37.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:37.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:37.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.012][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:38.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:38.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.018][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:38.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:38.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.023][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:38.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-09 09:59:38.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:38.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:38.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:38.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:38.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:38.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-09 09:59:38.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.063][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:38.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:38.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.069][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:38.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:38.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.075][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:38.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-09 09:59:38.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.081][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:38.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.086][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:38.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-09 09:59:38.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.098][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:38.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:38.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.103][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-09 09:59:38.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-09 09:59:38.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.115][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:38.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.138][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-09 09:59:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-09 09:59:38.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-09 09:59:38.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-09 09:59:38.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.180][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:38.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:38.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.186][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:38.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:38.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.197][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:38.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-09 09:59:38.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-09 09:59:38.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-09 09:59:38.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:38.241][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-05-09 09:59:38.243][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.248][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.254][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:38.265][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:38.267][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:38.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:38.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:38.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:38.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:38.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:38.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:38.283][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[2023-05-09 09:59:38.298][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-09 09:59:38.299][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-05-09 09:59:38.301][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-05-09 09:59:38.303][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:38.305][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:38.307][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:38.309][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:38.310][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:38.316][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:38.317][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:38.319][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:38.320][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:38.321][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:38.323][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-09 09:59:38.325][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.331][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.337][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.343][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.360][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:38.366][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:38.367][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:38.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:38.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:38.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:38.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:38.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:38.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:38.383][FUN] Functions in observer BiodbConfig: [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[2023-05-09 09:59:38.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.409][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.415][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.426][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:38.439][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-05-09 09:59:38.440][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:38.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:38.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:38.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:38.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:38.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:38.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:38.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-09 09:59:38.476][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-09 09:59:38.478][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-05-09 09:59:38.479][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-05-09 09:59:38.482][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:38.484][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:38.486][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-09 09:59:38.488][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-09 09:59:38.490][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-09 09:59:38.495][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-09 09:59:38.497][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-09 09:59:38.499][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-09 09:59:38.500][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-09 09:59:38.502][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-09 09:59:38.503][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-09 09:59:38.506][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.513][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.519][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.525][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.531][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.538][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.544][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:38.550][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-05-09 09:59:38.552][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-05-09 09:59:38.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:38.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:38.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:38.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:38.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:38.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:38.569][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[2023-05-09 09:59:38.571][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.577][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.584][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.596][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-09 09:59:38.608][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-09 09:59:38.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-09 09:59:38.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-09 09:59:38.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-09 09:59:38.614][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-09 09:59:38.616][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-09 09:59:38.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-09 09:59:38.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:38.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:38.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:38.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:38.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:38.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-05-09 09:59:38.638][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-05-09 09:59:38.640][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-05-09 09:59:38.641][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-05-09 09:59:38.643][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-05-09 09:59:38.644][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-09 09:59:38.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-09 09:59:38.647][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-09 09:59:38.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-09 09:59:38.650][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-05-09 09:59:38.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 199 ]
>
> proc.time()
user system elapsed
13.423 0.424 18.924
biodbHmdb.Rcheck/biodbHmdb-Ex.timings
| name | user | system | elapsed | |
| HmdbMetabolitesConn | 1.974 | 0.215 | 2.190 | |
| HmdbMetabolitesEntry | 0.422 | 0.000 | 0.424 | |