| Back to Build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-02-27 02:34:30 -0000 (Mon, 27 Feb 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4259 |
| 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: - Please 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 How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 181/2169 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.5.0 (landing page) Pierrick Roger
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: biodbHmdb |
| Version: 1.5.0 |
| 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/library --timings biodbHmdb_1.5.0.tar.gz |
| StartedAt: 2023-02-24 07:50:44 -0000 (Fri, 24 Feb 2023) |
| EndedAt: 2023-02-24 07:52:33 -0000 (Fri, 24 Feb 2023) |
| EllapsedTime: 108.4 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/library --timings biodbHmdb_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* 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 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.5.0’
* 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 6.5Mb
sub-directories of 1Mb or more:
libs 5.9Mb
* 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
HmdbMetabolitesConn 2.405 0.739 7.565
* 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/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++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Tag.cpp -o Tag.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-100-tag.cpp -o test-100-tag.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-runner.cpp -o test-runner.o g++ -std=gnu++14 -shared -L/home/biocbuild/bbs-3.17-bioc/R/lib -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o -L/home/biocbuild/bbs-3.17-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.17-bioc/R/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) (2023-01-14 r83615) -- "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 [2023-02-24 07:52:05.365][biodb::testContext]
biodb.INFO [2023-02-24 07:52:05.367][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:05.369][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-02-24 07:52:05.370][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:05.371][biodb::testContext]
biodb.INFO [2023-02-24 07:52:05.373][biodb::testThat]
biodb.INFO [2023-02-24 07:52:05.374][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-02-24 07:52:05.376][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:05.377][biodb::testThat]
biodb.INFO [2023-02-24 07:52:05.508][biodb::testContext]
biodb.INFO [2023-02-24 07:52:05.509][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:05.510][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-02-24 07:52:05.512][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:05.513][biodb::testContext]
biodb.INFO [2023-02-24 07:52:05.534][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-24 07:52:05.537][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-24 07:52:05.546][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:05.547][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-24 07:52:05.549][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-24 07:52:05.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.554][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-24 07:52:05.579][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-24 07:52:05.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.584][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-24 07:52:05.585][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-24 07:52:05.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.590][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-24 07:52:05.592][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-24 07:52:05.593][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-24 07:52:05.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.598][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-24 07:52:05.599][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-24 07:52:05.601][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-24 07:52:05.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.606][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-24 07:52:05.607][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-24 07:52:05.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.612][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-24 07:52:05.613][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-24 07:52:05.615][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-24 07:52:05.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.620][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-24 07:52:05.621][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-24 07:52:05.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.626][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-24 07:52:05.627][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-24 07:52:05.629][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-24 07:52:05.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.634][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-24 07:52:05.635][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-24 07:52:05.637][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-24 07:52:05.638][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-24 07:52:05.639][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-24 07:52:05.641][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-24 07:52:05.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.646][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-24 07:52:05.647][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-24 07:52:05.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.663][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-24 07:52:05.664][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-24 07:52:05.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.670][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-24 07:52:05.671][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-24 07:52:05.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.676][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-24 07:52:05.678][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-24 07:52:05.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.683][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-24 07:52:05.685][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-24 07:52:05.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.690][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-24 07:52:05.692][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-24 07:52:05.697][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-24 07:52:05.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.702][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-24 07:52:05.703][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-24 07:52:05.705][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-24 07:52:05.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.714][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-24 07:52:05.761][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.784][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-24 07:52:05.786][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.787][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:05.789][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.791][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.793][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.794][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-24 07:52:05.795][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:05.797][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.798][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-24 07:52:05.799][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:05.801][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.802][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.803][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:05.803][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-24 07:52:05.803][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-24 07:52:05.803][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-24 07:52:05.803][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-24 07:52:05.805][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:05.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.807][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.808][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:05.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.814][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.815][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:05.816][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:05.817][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.819][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.820][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-24 07:52:05.823][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.824][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-24 07:52:05.826][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.827][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:05.828][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.830][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.831][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.832][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.834][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-24 07:52:05.835][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:05.836][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.838][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-24 07:52:05.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:05.840][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.842][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.843][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:05.843][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-24 07:52:05.843][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-24 07:52:05.843][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-24 07:52:05.843][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-24 07:52:05.844][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:05.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:05.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.852][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.853][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:05.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:05.857][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.859][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.860][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-24 07:52:05.863][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.864][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-24 07:52:05.865][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:05.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.871][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.872][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.873][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-24 07:52:05.875][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:05.876][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.877][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-24 07:52:05.879][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:05.880][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.882][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.883][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.884][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:05.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.888][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:05.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.891][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.892][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.893][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.895][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:05.896][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:05.897][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.898][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.908][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-24 07:52:05.911][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.912][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-24 07:52:05.914][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.915][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:05.916][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.918][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.919][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.920][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.922][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-24 07:52:05.923][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:05.925][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.926][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-24 07:52:05.927][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:05.929][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.930][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:05.932][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.933][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:05.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.936][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.937][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:05.938][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:05.940][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:05.941][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:05.942][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.944][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:05.945][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:05.946][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:05.948][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:05.953][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:05.954][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:05.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:05.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:05.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:05.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:05.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.045][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[2023-02-24 07:52:06.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.066][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-24 07:52:06.073][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-24 07:52:06.075][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-24 07:52:06.077][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-24 07:52:06.079][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-24 07:52:06.081][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-24 07:52:06.083][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-24 07:52:06.084][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-24 07:52:06.086][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-24 07:52:06.088][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-24 07:52:06.090][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-24 07:52:06.092][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-24 07:52:06.094][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-24 07:52:06.096][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-24 07:52:06.098][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-24 07:52:06.100][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-24 07:52:06.102][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-24 07:52:06.104][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-24 07:52:06.106][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-24 07:52:06.108][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-24 07:52:06.110][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-24 07:52:06.112][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-24 07:52:06.114][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-24 07:52:06.116][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-24 07:52:06.118][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-24 07:52:06.120][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-24 07:52:06.122][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-24 07:52:06.124][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-24 07:52:06.127][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-24 07:52:06.129][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-24 07:52:06.131][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-24 07:52:06.133][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-24 07:52:06.135][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-24 07:52:06.136][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-24 07:52:06.138][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-24 07:52:06.140][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-24 07:52:06.142][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-24 07:52:06.144][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-24 07:52:06.146][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-24 07:52:06.148][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-24 07:52:06.150][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-24 07:52:06.152][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-24 07:52:06.154][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-24 07:52:06.164][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-24 07:52:06.166][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-24 07:52:06.168][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-24 07:52:06.170][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-24 07:52:06.172][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-24 07:52:06.174][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-24 07:52:06.176][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-24 07:52:06.178][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-24 07:52:06.180][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-24 07:52:06.182][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-24 07:52:06.184][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-24 07:52:06.186][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-24 07:52:06.188][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-24 07:52:06.190][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-24 07:52:06.192][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-24 07:52:06.194][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-24 07:52:06.196][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-24 07:52:06.198][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-24 07:52:06.200][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-24 07:52:06.202][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-24 07:52:06.204][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-24 07:52:06.206][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-24 07:52:06.208][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-24 07:52:06.210][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-24 07:52:06.212][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-24 07:52:06.214][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-24 07:52:06.216][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-24 07:52:06.218][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-24 07:52:06.220][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-24 07:52:06.222][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-24 07:52:06.224][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-24 07:52:06.226][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-24 07:52:06.228][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-24 07:52:06.230][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-24 07:52:06.232][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-24 07:52:06.234][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-24 07:52:06.236][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-24 07:52:06.238][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-24 07:52:06.240][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-24 07:52:06.242][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-24 07:52:06.251][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-24 07:52:06.253][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-24 07:52:06.257][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:06.259][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.261][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:06.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:06.456][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-24 07:52:06.469][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:06.472][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:06.474][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-24 07:52:06.475][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:06.477][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:06.478][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:06.479][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-24 07:52:06.481][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:06.482][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:06.484][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-24 07:52:06.485][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:06.487][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:06.488][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-24 07:52:06.490][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-24 07:52:06.491][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-24 07:52:06.493][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:06.494][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:06.494][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-24 07:52:06.496][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-24 07:52:06.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:06.499][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:06.500][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:06.501][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:06.503][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:06.504][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:06.506][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-24 07:52:06.506][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-24 07:52:06.507][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:06.508][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:06.510][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:06.511][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:06.520][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-24 07:52:06.522][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-24 07:52:06.524][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-24 07:52:06.527][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-24 07:52:06.557][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:06.559][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-24 07:52:06.565][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:06.571][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:06.576][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:06.578][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:06.580][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-24 07:52:06.581][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-24 07:52:06.583][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-24 07:52:06.583][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-24 07:52:06.584][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:06.586][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:06.587][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-24 07:52:06.588][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-24 07:52:06.590][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:06.615][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:06.617][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:06.618][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:06.620][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:06.622][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:06.623][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-24 07:52:06.644][biodb::testThat]
biodb.INFO [2023-02-24 07:52:06.645][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-02-24 07:52:06.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:06.648][biodb::testThat]
biodb.TRACE[2023-02-24 07:52:06.655][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-02-24 07:52:06.661][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:06.666][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:06.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:06.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:06.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:06.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:06.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:06.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:06.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:06.723][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:06.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:06.727][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.728][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:06.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:06.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.757][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:06.759][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:06.761][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.762][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.801][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:06.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.811][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:06.812][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:06.814][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.815][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.817][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:06.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:06.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:06.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:06.829][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.830][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:06.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:06.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.842][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:06.843][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:06.845][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.846][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:06.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:06.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.857][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:06.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:06.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.861][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.864][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:06.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.873][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:06.875][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:06.876][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.877][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.879][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:06.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:06.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.889][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:06.890][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:06.891][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.893][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.895][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:06.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:06.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.904][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:06.906][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:06.907][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.908][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:06.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:06.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.928][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:06.930][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:06.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.932][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.934][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:06.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:06.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.943][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:06.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:06.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.947][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:06.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.959][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:06.961][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:06.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.964][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:06.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:06.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.975][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:06.977][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:06.978][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.979][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:06.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:06.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.991][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:06.993][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:06.994][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:06.995][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:06.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:06.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.006][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.008][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.009][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.010][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.012][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.022][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:07.027][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:07.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.029][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.032][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:07.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:07.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.041][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:07.042][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.045][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.047][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:07.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.119][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:07.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.132][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:07.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:07.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:07.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:07.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.143][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:07.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:07.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.149][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:07.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:07.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:07.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:07.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:07.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:07.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.198][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:07.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:07.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.209][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:07.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:07.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.214][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:07.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:07.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.220][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:07.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:07.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.225][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.231][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:07.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.241][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.247][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:07.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:07.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:07.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:07.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:07.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:07.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.307][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.318][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:07.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:07.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:07.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:07.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:07.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:07.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.364][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.370][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.375][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.381][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.387][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:07.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:07.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.392][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:07.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:07.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.398][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:07.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.421][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:07.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:07.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.486][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.502][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:07.552][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-24 07:52:07.559][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-24 07:52:07.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-24 07:52:07.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.565][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-24 07:52:07.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-24 07:52:07.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.571][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-24 07:52:07.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-24 07:52:07.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-24 07:52:07.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-24 07:52:07.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.618][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.666][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.672][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.678][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:07.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.711][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.715][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:07.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:07.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.757][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.758][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.759][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.761][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:07.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.777][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.783][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.788][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.794][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.796][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.797][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.798][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.800][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:07.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.832][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.835][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.836][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:07.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.853][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.858][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.864][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.869][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.870][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.873][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:07.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.905][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.908][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.909][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:07.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:07.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.949][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.950][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.953][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.955][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:07.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:07.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.970][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.987][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.991][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:07.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:07.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:07.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:07.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.007][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.013][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.018][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.024][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.025][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.028][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.029][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.061][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.063][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.064][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.065][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.088][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.093][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.099][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.100][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.103][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.104][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.119][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.131][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.136][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.138][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.139][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.140][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.164][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.181][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.183][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.184][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.185][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:08.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:08.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.208][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:08.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:08.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:08.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:08.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:08.220][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:08.222][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.223][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.224][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:08.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:08.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.260][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.261][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.295][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.297][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.298][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.299][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.316][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.322][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.328][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.334][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.335][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.336][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.338][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.339][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.362][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:08.364][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:08.365][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.367][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.375][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.376][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.377][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.379][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.387][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.388][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.390][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.391][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:08.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:08.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.403][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.411][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:08.413][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:08.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.415][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.423][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.425][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.426][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.427][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.435][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.437][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.438][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.439][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.447][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.449][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:08.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.452][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.459][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:08.461][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:08.462][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.464][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.472][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:08.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:08.475][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.476][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.484][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.485][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.487][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.488][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.496][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.497][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.499][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.500][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.508][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:08.509][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:08.511][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.512][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.520][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.521][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.523][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.524][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.532][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:08.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:08.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.536][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.544][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:08.545][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:08.547][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.548][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:08.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:08.565][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.567][ef$get] fields variable is a list.
biodb.INFO [2023-02-24 07:52:08.576][biodb::testThat]
biodb.INFO [2023-02-24 07:52:08.577][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-02-24 07:52:08.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:08.580][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:08.599][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-02-24 07:52:08.609][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2023-02-24 07:52:08.616][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-02-24 07:52:08.617][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-02-24 07:52:08.619][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-02-24 07:52:08.620][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-02-24 07:52:08.623][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-02-24 07:52:08.624][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-02-24 07:52:08.627][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-02-24 07:52:08.629][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-02-24 07:52:08.630][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-02-24 07:52:08.636][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker2245d34f35c409marker".
biodb.TRACE[2023-02-24 07:52:08.637][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-02-24 07:52:08.639][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-02-24 07:52:08.641][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-02-24 07:52:08.643][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-02-24 07:52:08.644][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2023-02-24 07:52:08.646][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-02-24 07:52:08.647][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2023-02-24 07:52:08.651][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-02-24 07:52:08.652][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-02-24 07:52:08.653][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-02-24 07:52:08.655][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2023-02-24 07:52:08.664][self$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[2023-02-24 07:52:08.666][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-24 07:52:08.667][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-02-24 07:52:08.668][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-02-24 07:52:08.671][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker2245d3332fcb45marker".
biodb.TRACE[2023-02-24 07:52:08.673][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-02-24 07:52:08.674][self$addFilesToCache] Done adding files.
biodb.TRACE[2023-02-24 07:52:08.676][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-02-24 07:52:08.678][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-24 07:52:08.680][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-02-24 07:52:08.682][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-24 07:52:08.737][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:08.739][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:08.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:08.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:08.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:08.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:08.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:08.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:08.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:08.769][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:08.770][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:08.772][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.773][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:08.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:08.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.784][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.785][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.787][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.788][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:08.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.799][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.801][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.802][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.804][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.806][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:08.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:08.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:08.818][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.819][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:08.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.830][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:08.832][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:08.833][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.835][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:08.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:08.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:08.848][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:08.849][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.850][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.852][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:08.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:08.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.862][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:08.863][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:08.864][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.866][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:08.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:08.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.877][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.879][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.880][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.881][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:08.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.893][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.894][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.896][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.897][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.899][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.909][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:08.910][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:08.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.913][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:08.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:08.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.929][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.932][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.933][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.935][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:08.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:08.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.948][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.951][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.953][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:08.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.965][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.967][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.968][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.970][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:08.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:08.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:08.998][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.000][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.001][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.003][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.015][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.016][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.020][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.032][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:09.034][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:09.035][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.037][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:09.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:09.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.049][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:09.051][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.053][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.054][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.056][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:09.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.086][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.093][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:09.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:09.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.099][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:09.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:09.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.105][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:09.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:09.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.112][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:09.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:09.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.118][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:09.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:09.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:09.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:09.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:09.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:09.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:09.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:09.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:09.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:09.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:09.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:09.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:09.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:09.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:09.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.181][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:09.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:09.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:09.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:09.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.194][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:09.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:09.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.200][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:09.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:09.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:09.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:09.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:09.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:09.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:09.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:09.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:09.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:09.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:09.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.298][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:09.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:09.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:09.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:09.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.309][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:09.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:09.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:09.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:09.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:09.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:09.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.332][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.349][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:09.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:09.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.355][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:09.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.360][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:09.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:09.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:09.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.383][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:09.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.413][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:09.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:09.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.456][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:09.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:09.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.461][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:09.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:09.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.472][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:09.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:09.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:09.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:09.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.516][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-24 07:52:09.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-02-24 07:52:09.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-02-24 07:52:09.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-02-24 07:52:09.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-02-24 07:52:09.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-02-24 07:52:09.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-02-24 07:52:09.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-24 07:52:09.542][biodb::testThat]
biodb.INFO [2023-02-24 07:52:09.544][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-02-24 07:52:09.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:09.546][biodb::testThat]
biodb.TRACE[2023-02-24 07:52:09.550][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.554][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.556][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-02-24 07:52:09.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.622][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-02-24 07:52:09.635][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-02-24 07:52:09.636][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-24 07:52:09.637][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-24 07:52:09.640][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:09.642][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:09.644][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:09.646][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:09.647][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:09.653][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:09.654][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:09.656][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:09.657][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:09.658][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-24 07:52:09.660][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-24 07:52:09.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.685][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:09.686][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-24 07:52:09.688][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-02-24 07:52:09.707][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.709][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.712][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.713][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-02-24 07:52:09.734][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.739][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.745][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.752][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[2023-02-24 07:52:09.845][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-24 07:52:09.847][private$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[2023-02-24 07:52:09.848][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-02-24 07:52:09.868][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:09.871][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:09.872][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:09.874][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:09.875][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:09.900][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:09.902][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:09.903][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:09.904][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:09.906][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-24 07:52:09.907][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-24 07:52:09.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.915][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.920][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:09.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:09.930][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:09.932][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-24 07:52:09.933][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-02-24 07:52:09.961][biodb::testThat]
biodb.INFO [2023-02-24 07:52:09.963][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-02-24 07:52:09.964][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:09.965][biodb::testThat]
biodb.TRACE[2023-02-24 07:52:09.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:09.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:09.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:09.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:10.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:10.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:10.028][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-02-24 07:52:10.029][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-24 07:52:10.030][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-24 07:52:10.033][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:10.035][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:10.036][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:10.038][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:10.040][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:10.045][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:10.047][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:10.048][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:10.049][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:10.051][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-24 07:52:10.052][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-24 07:52:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:10.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:10.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:10.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:10.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:10.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:10.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:10.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:10.076][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:10.078][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-02-24 07:52:10.099][biodb::testThat]
biodb.INFO [2023-02-24 07:52:10.100][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-02-24 07:52:10.101][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:10.103][biodb::testThat]
biodb.TRACE[2023-02-24 07:52:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.157][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-24 07:52:10.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-24 07:52:10.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-24 07:52:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-24 07:52:10.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.234][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-24 07:52:10.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.239][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-24 07:52:10.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-24 07:52:10.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-24 07:52:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-24 07:52:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-24 07:52:10.253][biodb::testThat]
biodb.INFO [2023-02-24 07:52:10.255][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-02-24 07:52:10.256][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:10.257][biodb::testThat]
biodb.INFO [2023-02-24 07:52:10.264][biodb::testThat]
biodb.INFO [2023-02-24 07:52:10.265][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-02-24 07:52:10.266][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:10.268][biodb::testThat]
biodb.INFO [2023-02-24 07:52:10.274][biodb::testThat]
biodb.INFO [2023-02-24 07:52:10.275][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-02-24 07:52:10.277][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:10.278][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:10.282][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-02-24 07:52:12.593][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-02-24 07:52:13.099][biodb::testThat]
biodb.INFO [2023-02-24 07:52:13.101][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-02-24 07:52:13.102][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:13.104][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:14.753][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-02-24 07:52:15.267][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:15.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:15.270][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.272][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.273][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:15.275][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:15.276][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.277][ef$get] fields variable is a list.
biodb.INFO [2023-02-24 07:52:15.279][biodb::testThat]
biodb.INFO [2023-02-24 07:52:15.281][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-02-24 07:52:15.282][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:15.283][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:15.286][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-02-24 07:52:15.354][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-24 07:52:15.356][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.358][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-24 07:52:15.424][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-02-24 07:52:15.426][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-02-24 07:52:15.428][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-02-24 07:52:15.429][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-24 07:52:15.431][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.452][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:15.454][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:15.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:15.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:15.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:15.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:15.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:15.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:15.472][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.477][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:15.514][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-02-24 07:52:15.515][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-02-24 07:52:15.535][biodb::testThat]
biodb.INFO [2023-02-24 07:52:15.536][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-02-24 07:52:15.538][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:15.539][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:15.547][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-02-24 07:52:15.549][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-02-24 07:52:15.550][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-24 07:52:15.553][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.555][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-24 07:52:15.557][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-02-24 07:52:15.577][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-02-24 07:52:15.579][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-02-24 07:52:15.581][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-24 07:52:15.584][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.609][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:15.611][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:15.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:15.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:15.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:15.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:15.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:15.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:15.633][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.639][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:15.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:15.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:15.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:15.682][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-02-24 07:52:15.683][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-02-24 07:52:15.684][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-02-24 07:52:15.702][biodb::testThat]
biodb.INFO [2023-02-24 07:52:15.703][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-02-24 07:52:15.705][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:15.706][biodb::testThat]
biodb.INFO [2023-02-24 07:52:15.735][biodb::testThat]
biodb.INFO [2023-02-24 07:52:15.736][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-02-24 07:52:15.749][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:15.750][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:15.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.756][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.758][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:15.760][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.761][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:15.767][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:15.769][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:15.770][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:15.772][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-02-24 07:52:15.780][biodb::testThat]
biodb.INFO [2023-02-24 07:52:15.782][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-02-24 07:52:15.783][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:15.785][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:15.788][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.790][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.792][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:15.794][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:15.796][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:15.801][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:15.803][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:15.804][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:15.806][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-02-24 07:52:15.822][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:15.824][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:15.825][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.827][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:15.828][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:15.830][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:15.831][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:15.832][ef$get] fields variable is a list.
biodb.INFO [2023-02-24 07:52:15.834][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-24 07:52:15.835][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-24 07:52:15.847][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-24 07:52:15.848][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-24 07:52:15.849][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:15.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:15.852][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:15.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:15.854][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-24 07:52:15.860][biodb::testContext]
biodb.INFO [2023-02-24 07:52:15.862][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:15.863][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-02-24 07:52:15.865][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:15.866][biodb::testContext]
biodb.INFO [2023-02-24 07:52:15.875][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-24 07:52:15.877][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-24 07:52:15.882][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:15.883][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-24 07:52:15.885][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-24 07:52:15.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.890][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-24 07:52:15.892][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-24 07:52:15.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.897][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-24 07:52:15.899][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-24 07:52:15.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.905][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-24 07:52:15.906][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-24 07:52:15.917][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-24 07:52:15.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.922][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-24 07:52:15.923][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-24 07:52:15.925][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-24 07:52:15.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.930][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-24 07:52:15.931][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-24 07:52:15.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.937][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-24 07:52:15.938][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-24 07:52:15.939][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-24 07:52:15.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.945][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-24 07:52:15.946][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-24 07:52:15.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.951][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-24 07:52:15.953][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-24 07:52:15.954][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-24 07:52:15.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.959][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-24 07:52:15.961][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-24 07:52:15.962][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-24 07:52:15.964][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-24 07:52:15.965][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-24 07:52:15.967][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-24 07:52:15.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.972][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-24 07:52:15.973][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-24 07:52:15.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.979][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-24 07:52:15.980][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-24 07:52:15.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.985][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-24 07:52:15.987][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-24 07:52:15.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.992][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-24 07:52:15.994][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-24 07:52:15.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:15.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:15.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:15.999][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-24 07:52:16.001][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-24 07:52:16.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.006][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-24 07:52:16.008][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-24 07:52:16.012][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-24 07:52:16.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.018][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-24 07:52:16.019][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-24 07:52:16.021][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-24 07:52:16.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.027][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-24 07:52:16.030][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.032][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-24 07:52:16.033][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.035][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:16.036][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.038][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.039][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.041][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.042][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-24 07:52:16.044][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:16.045][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.047][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-24 07:52:16.048][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:16.050][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.051][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.053][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:16.053][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-24 07:52:16.053][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-24 07:52:16.053][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-24 07:52:16.053][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-24 07:52:16.054][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:16.056][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.057][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.058][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:16.060][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.061][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.062][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.064][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.065][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:16.067][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:16.068][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.070][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.071][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-24 07:52:16.082][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.083][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-24 07:52:16.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.086][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:16.088][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.089][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.091][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.093][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-24 07:52:16.095][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:16.096][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.098][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-24 07:52:16.099][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:16.101][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.102][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.103][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:16.103][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-24 07:52:16.103][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-24 07:52:16.103][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-24 07:52:16.103][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-24 07:52:16.105][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:16.106][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.109][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:16.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.112][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.113][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.115][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.116][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:16.118][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:16.119][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.121][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.122][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-24 07:52:16.125][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.126][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-24 07:52:16.128][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.129][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:16.131][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.132][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.134][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.135][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.137][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-24 07:52:16.138][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:16.140][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.141][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-24 07:52:16.143][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:16.144][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.146][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.147][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.149][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:16.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.152][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.153][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:16.155][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.156][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.158][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.160][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.161][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:16.162][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:16.164][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.165][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.167][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-24 07:52:16.169][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.171][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-24 07:52:16.172][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.174][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:16.175][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.177][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.178][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.179][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.181][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-24 07:52:16.182][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:16.184][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.185][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-24 07:52:16.187][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:16.188][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.189][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.191][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.192][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:16.194][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.196][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:16.198][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.199][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.200][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.202][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.203][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:16.204][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:16.206][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.207][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.209][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:16.210][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.218][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[2023-02-24 07:52:16.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.264][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[2023-02-24 07:52:16.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.283][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[2023-02-24 07:52:16.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.328][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-24 07:52:16.330][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-24 07:52:16.332][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-24 07:52:16.333][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-24 07:52:16.335][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-24 07:52:16.337][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-24 07:52:16.339][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-24 07:52:16.341][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-24 07:52:16.343][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-24 07:52:16.345][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-24 07:52:16.347][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-24 07:52:16.349][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-24 07:52:16.351][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-24 07:52:16.353][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-24 07:52:16.355][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-24 07:52:16.357][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-24 07:52:16.359][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-24 07:52:16.360][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-24 07:52:16.362][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-24 07:52:16.364][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-24 07:52:16.366][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-24 07:52:16.368][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-24 07:52:16.370][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-24 07:52:16.372][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-24 07:52:16.374][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-24 07:52:16.376][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-24 07:52:16.378][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-24 07:52:16.380][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-24 07:52:16.382][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-24 07:52:16.384][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-24 07:52:16.393][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-24 07:52:16.396][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-24 07:52:16.398][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-24 07:52:16.400][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-24 07:52:16.402][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-24 07:52:16.403][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-24 07:52:16.405][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-24 07:52:16.407][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-24 07:52:16.409][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-24 07:52:16.411][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-24 07:52:16.413][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-24 07:52:16.415][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-24 07:52:16.417][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-24 07:52:16.419][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-24 07:52:16.421][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-24 07:52:16.423][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-24 07:52:16.425][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-24 07:52:16.427][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-24 07:52:16.429][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-24 07:52:16.431][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-24 07:52:16.433][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-24 07:52:16.435][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-24 07:52:16.437][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-24 07:52:16.439][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-24 07:52:16.440][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-24 07:52:16.442][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-24 07:52:16.444][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-24 07:52:16.446][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-24 07:52:16.448][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-24 07:52:16.450][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-24 07:52:16.452][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-24 07:52:16.454][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-24 07:52:16.456][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-24 07:52:16.458][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-24 07:52:16.460][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-24 07:52:16.462][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-24 07:52:16.464][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-24 07:52:16.466][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-24 07:52:16.467][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-24 07:52:16.469][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-24 07:52:16.471][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-24 07:52:16.473][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-24 07:52:16.475][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-24 07:52:16.477][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-24 07:52:16.479][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-24 07:52:16.481][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-24 07:52:16.483][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-24 07:52:16.485][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-24 07:52:16.487][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-24 07:52:16.489][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-24 07:52:16.491][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-24 07:52:16.493][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-24 07:52:16.495][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-24 07:52:16.497][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-24 07:52:16.499][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-24 07:52:16.500][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:16.501][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.504][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.599][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[2023-02-24 07:52:16.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.616][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[2023-02-24 07:52:16.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:16.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:16.660][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-24 07:52:16.662][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:16.664][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.666][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.667][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.669][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:16.670][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.671][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-24 07:52:16.673][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.674][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.675][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-24 07:52:16.677][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:16.678][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.680][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-24 07:52:16.681][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-24 07:52:16.691][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-24 07:52:16.692][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:16.694][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:16.694][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-24 07:52:16.695][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-24 07:52:16.697][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.698][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.699][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:16.701][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:16.702][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:16.703][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:16.705][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-24 07:52:16.705][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-24 07:52:16.706][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:16.708][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:16.709][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:16.710][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:16.712][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-24 07:52:16.715][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-24 07:52:16.717][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-24 07:52:16.719][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-24 07:52:16.724][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:16.725][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-24 07:52:16.727][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:16.729][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:16.731][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:16.732][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:16.734][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-24 07:52:16.735][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-24 07:52:16.737][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-24 07:52:16.737][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-24 07:52:16.738][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:16.739][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:16.741][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-24 07:52:16.742][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-24 07:52:16.743][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:16.745][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:16.747][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:16.748][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:16.750][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:16.752][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:16.753][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-24 07:52:16.755][biodb::testThat]
biodb.INFO [2023-02-24 07:52:16.757][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-02-24 07:52:16.758][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:16.759][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:16.765][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:16.767][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:16.769][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:16.771][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:16.772][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:16.778][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:16.779][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:16.780][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:16.782][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:16.785][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-02-24 07:52:16.788][biodb::testThat]
biodb.INFO [2023-02-24 07:52:16.790][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-02-24 07:52:16.791][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:16.792][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:16.795][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-02-24 07:52:16.797][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-24 07:52:16.799][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:16.801][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-24 07:52:16.804][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-02-24 07:52:16.805][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-24 07:52:16.807][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-24 07:52:16.809][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-24 07:52:16.829][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:16.831][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:16.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:16.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:16.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:16.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:16.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:16.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:16.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:16.860][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:16.862][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:16.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.864][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:16.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:16.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.880][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:16.882][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:16.884][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.885][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.888][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:16.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:16.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.899][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:16.901][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:16.903][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.904][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.906][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:16.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:16.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.916][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:16.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:16.919][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.920][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:16.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:16.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.933][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:16.934][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:16.936][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.937][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:16.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:16.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:16.951][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:16.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.954][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.956][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:16.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:16.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.966][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:16.967][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:16.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.970][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.972][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:16.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:16.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.982][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:16.984][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:16.985][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.986][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.988][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:16.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:16.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:16.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:16.998][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.000][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.001][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.003][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.015][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:17.017][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:17.033][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.035][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:17.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:17.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:17.048][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:17.049][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.051][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:17.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:17.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.062][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.064][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.065][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.067][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.078][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.079][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.081][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.082][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.093][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.094][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.096][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.097][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.108][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:17.109][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:17.111][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.112][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.114][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:17.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:17.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.123][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:17.124][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:17.126][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.127][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.129][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:17.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:17.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.138][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:17.140][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.141][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.142][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.144][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:17.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.171][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:17.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:17.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.176][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:17.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:17.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:17.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:17.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.196][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:17.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:17.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.201][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:17.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:17.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.207][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:17.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:17.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:17.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:17.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:17.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:17.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:17.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:17.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:17.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:17.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:17.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:17.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:17.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:17.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.245][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:17.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:17.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:17.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:17.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.257][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:17.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:17.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.262][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.268][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.273][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.279][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.284][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:17.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.295][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.301][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:17.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:17.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:17.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:17.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:17.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:17.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:17.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:17.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:17.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:17.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:17.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:17.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:17.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:17.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:17.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:17.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:17.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.376][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:17.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:17.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.381][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:17.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:17.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:17.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.420][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:17.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:17.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.425][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:17.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:17.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.431][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:17.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:17.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.437][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:17.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:17.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.442][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:17.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:17.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.448][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:17.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.453][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:17.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.476][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:17.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:17.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:17.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:17.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.527][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:17.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:17.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.533][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:17.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:17.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.544][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:17.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:17.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:17.588][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-02-24 07:52:17.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:17.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:17.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:17.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:17.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-24 07:52:17.609][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-24 07:52:17.611][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-24 07:52:17.612][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-24 07:52:17.614][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-24 07:52:17.615][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:17.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:17.617][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.620][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-24 07:52:17.626][biodb::testContext]
biodb.INFO [2023-02-24 07:52:17.627][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:17.629][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-02-24 07:52:17.630][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-24 07:52:17.631][biodb::testContext]
biodb.INFO [2023-02-24 07:52:17.639][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-24 07:52:17.641][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-24 07:52:17.646][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:17.656][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-24 07:52:17.657][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-24 07:52:17.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.663][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-24 07:52:17.664][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-24 07:52:17.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.669][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-24 07:52:17.670][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-24 07:52:17.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.675][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-24 07:52:17.677][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-24 07:52:17.678][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-24 07:52:17.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.683][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-24 07:52:17.684][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-24 07:52:17.686][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-24 07:52:17.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.691][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-24 07:52:17.692][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-24 07:52:17.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.697][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-24 07:52:17.698][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-24 07:52:17.700][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-24 07:52:17.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.705][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-24 07:52:17.706][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-24 07:52:17.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.711][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-24 07:52:17.713][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-24 07:52:17.714][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-24 07:52:17.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.719][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-24 07:52:17.720][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-24 07:52:17.722][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-24 07:52:17.723][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-24 07:52:17.724][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-24 07:52:17.726][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-24 07:52:17.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.731][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-24 07:52:17.732][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-24 07:52:17.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.737][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-24 07:52:17.738][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-24 07:52:17.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.743][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-24 07:52:17.745][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-24 07:52:17.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.750][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-24 07:52:17.751][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-24 07:52:17.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.756][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-24 07:52:17.757][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-24 07:52:17.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.762][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-24 07:52:17.764][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-24 07:52:17.768][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-24 07:52:17.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.773][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-24 07:52:17.774][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-24 07:52:17.776][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-24 07:52:17.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.781][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-24 07:52:17.784][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.785][self$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[2023-02-24 07:52:17.786][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.788][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:17.789][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.792][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.793][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.795][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-24 07:52:17.804][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:17.805][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.807][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-24 07:52:17.808][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:17.810][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.811][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.812][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:17.812][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-24 07:52:17.812][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-24 07:52:17.812][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-24 07:52:17.812][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-24 07:52:17.814][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:17.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.817][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:17.819][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.821][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.823][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.824][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:17.825][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:17.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.828][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.829][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-24 07:52:17.832][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.833][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-24 07:52:17.835][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.836][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:17.837][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.839][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.840][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.841][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.843][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-24 07:52:17.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:17.846][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.847][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-24 07:52:17.848][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:17.850][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.851][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.852][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:17.852][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-24 07:52:17.852][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-24 07:52:17.852][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-24 07:52:17.852][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-24 07:52:17.854][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:17.855][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.857][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:17.859][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.860][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.861][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.863][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.864][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:17.865][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:17.866][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.868][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.869][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-24 07:52:17.872][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.873][self$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[2023-02-24 07:52:17.874][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.876][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:17.877][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.878][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.880][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.881][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.882][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-24 07:52:17.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:17.885][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.886][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-24 07:52:17.888][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:17.889][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.890][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.892][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.893][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:17.894][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.897][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:17.898][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.899][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.901][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.902][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.903][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:17.904][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:17.906][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.907][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.909][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-24 07:52:17.911][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.912][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-24 07:52:17.914][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.915][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:17.916][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.918][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.919][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.920][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.922][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-24 07:52:17.923][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:17.924][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.926][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-24 07:52:17.927][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:17.928][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.930][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:17.931][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.932][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-24 07:52:17.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.935][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.936][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:17.937][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:17.939][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:17.948][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:17.949][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.951][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:17.952][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:17.953][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:17.955][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:17.957][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:17.958][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:17.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:17.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:17.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:17.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.055][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[2023-02-24 07:52:18.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.063][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-24 07:52:18.065][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-24 07:52:18.067][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-24 07:52:18.068][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-24 07:52:18.070][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-24 07:52:18.072][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-24 07:52:18.074][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-24 07:52:18.076][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-24 07:52:18.078][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-24 07:52:18.080][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-24 07:52:18.089][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-24 07:52:18.092][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-24 07:52:18.094][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-24 07:52:18.096][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-24 07:52:18.098][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-24 07:52:18.100][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-24 07:52:18.101][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-24 07:52:18.103][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-24 07:52:18.105][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-24 07:52:18.107][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-24 07:52:18.109][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-24 07:52:18.111][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-24 07:52:18.113][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-24 07:52:18.115][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-24 07:52:18.117][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-24 07:52:18.119][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-24 07:52:18.121][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-24 07:52:18.123][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-24 07:52:18.125][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-24 07:52:18.127][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-24 07:52:18.129][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-24 07:52:18.130][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-24 07:52:18.132][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-24 07:52:18.134][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-24 07:52:18.136][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-24 07:52:18.138][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-24 07:52:18.140][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-24 07:52:18.142][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-24 07:52:18.144][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-24 07:52:18.146][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-24 07:52:18.148][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-24 07:52:18.150][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-24 07:52:18.152][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-24 07:52:18.154][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-24 07:52:18.155][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-24 07:52:18.157][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-24 07:52:18.159][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-24 07:52:18.161][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-24 07:52:18.163][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-24 07:52:18.165][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-24 07:52:18.167][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-24 07:52:18.169][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-24 07:52:18.171][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-24 07:52:18.173][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-24 07:52:18.175][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-24 07:52:18.176][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-24 07:52:18.178][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-24 07:52:18.180][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-24 07:52:18.182][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-24 07:52:18.184][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-24 07:52:18.186][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-24 07:52:18.188][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-24 07:52:18.190][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-24 07:52:18.192][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-24 07:52:18.194][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-24 07:52:18.196][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-24 07:52:18.197][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-24 07:52:18.199][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-24 07:52:18.201][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-24 07:52:18.203][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-24 07:52:18.205][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-24 07:52:18.207][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-24 07:52:18.209][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-24 07:52:18.211][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-24 07:52:18.213][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-24 07:52:18.215][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-24 07:52:18.217][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-24 07:52:18.219][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-24 07:52:18.221][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-24 07:52:18.222][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-24 07:52:18.233][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-24 07:52:18.235][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-24 07:52:18.237][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-24 07:52:18.239][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-24 07:52:18.241][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-24 07:52:18.243][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-24 07:52:18.244][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.246][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-24 07:52:18.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:18.405][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-24 07:52:18.407][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:18.409][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:18.411][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-24 07:52:18.412][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:18.413][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-24 07:52:18.415][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:18.416][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-24 07:52:18.418][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:18.419][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-24 07:52:18.420][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-24 07:52:18.422][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-24 07:52:18.423][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:18.424][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-24 07:52:18.426][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-24 07:52:18.427][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-24 07:52:18.429][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-24 07:52:18.430][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-24 07:52:18.430][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-24 07:52:18.431][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-24 07:52:18.433][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:18.434][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:18.435][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-24 07:52:18.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-24 07:52:18.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-24 07:52:18.439][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-24 07:52:18.441][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-24 07:52:18.441][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-24 07:52:18.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:18.443][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:18.444][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-24 07:52:18.446][self$setPropertyValue]
biodb.DEBUG[2023-02-24 07:52:18.448][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-24 07:52:18.450][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-24 07:52:18.452][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-24 07:52:18.454][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-24 07:52:18.458][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:18.460][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-24 07:52:18.461][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:18.463][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:18.465][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:18.466][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:18.468][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-24 07:52:18.469][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-24 07:52:18.471][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-24 07:52:18.471][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-24 07:52:18.472][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-24 07:52:18.473][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-24 07:52:18.474][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-24 07:52:18.476][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-24 07:52:18.477][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-24 07:52:18.479][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:18.481][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:18.482][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:18.484][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-24 07:52:18.485][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-24 07:52:18.487][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-24 07:52:18.489][biodb::testThat]
biodb.INFO [2023-02-24 07:52:18.490][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-02-24 07:52:18.491][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-24 07:52:18.493][biodb::testThat]
biodb.DEBUG[2023-02-24 07:52:18.506][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-24 07:52:18.507][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-02-24 07:52:18.508][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-02-24 07:52:18.513][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:18.515][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:18.525][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:18.527][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:18.528][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:18.534][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:18.535][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:18.537][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:18.538][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:18.540][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-24 07:52:18.541][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-02-24 07:52:18.543][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-02-24 07:52:18.545][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-24 07:52:18.547][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:18.549][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-24 07:52:18.552][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-02-24 07:52:18.553][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-24 07:52:18.556][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-02-24 07:52:18.557][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-24 07:52:18.583][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:18.585][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:18.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:18.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:18.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:18.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:18.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:18.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:18.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:18.610][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:18.612][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:18.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.615][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:18.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:18.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.627][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.629][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.630][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.632][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.634][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.644][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.645][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.648][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.650][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.660][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.663][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.664][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.676][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.677][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.680][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.714][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:18.715][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:18.717][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.718][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.720][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:18.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:18.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.730][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:18.731][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:18.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.734][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.736][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:18.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:18.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.746][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.747][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.749][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.750][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.762][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:18.763][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:18.765][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.766][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:18.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.777][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:18.779][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:18.780][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.781][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:18.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:18.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.792][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:18.793][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:18.794][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.796][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:18.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:18.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.807][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:18.808][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:18.809][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.811][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:18.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:18.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.822][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:18.823][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:18.824][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.826][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:18.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:18.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.837][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:18.838][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:18.839][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.841][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:18.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:18.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.851][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:18.853][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:18.854][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.856][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.865][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:18.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:18.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.875][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:18.877][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:18.878][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.880][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:18.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.891][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:18.892][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:18.894][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.895][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.897][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:18.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:18.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:18.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:18.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:18.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:18.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:18.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.924][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.929][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.935][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:18.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.940][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.952][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:18.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:18.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:18.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.991][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:18.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:18.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.002][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.034][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.056][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.067][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.078][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.117][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.167][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.182][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.188][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.193][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:19.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:19.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.199][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:19.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:19.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:19.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:19.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.210][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:19.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.233][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:19.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.276][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:19.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:19.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.282][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:19.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:19.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.293][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:19.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:19.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:19.345][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-24 07:52:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.352][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.358][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.364][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:19.369][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:19.371][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-24 07:52:19.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:19.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:19.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:19.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:19.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:19.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:19.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:19.388][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-02-24 07:52:19.389][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-24 07:52:19.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:19.393][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-24 07:52:19.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-02-24 07:52:19.398][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-24 07:52:19.400][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-24 07:52:19.402][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-24 07:52:19.422][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-24 07:52:19.424][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-24 07:52:19.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:19.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:19.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:19.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:19.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:19.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:19.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:19.444][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.449][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.459][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.461][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.462][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.464][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.465][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.475][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.476][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.477][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.479][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.481][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.503][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.515][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.516][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.517][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.519][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.530][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.532][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.533][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.534][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.536][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.546][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.547][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.549][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.550][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.552][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.561][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.563][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.565][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.567][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.576][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.578][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.579][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.581][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.582][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.592][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.596][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.607][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.609][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.611][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.627][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.641][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.642][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.662][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.665][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.666][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.677][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.679][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.680][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.681][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.683][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.692][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:19.693][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:19.695][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.696][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.707][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:19.708][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.711][ef$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.713][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-24 07:52:19.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:19.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:19.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.738][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.743][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.749][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-24 07:52:19.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.754][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.760][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.765][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-24 07:52:19.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-24 07:52:19.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-24 07:52:19.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.816][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.821][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-24 07:52:19.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.833][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.838][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.844][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-24 07:52:19.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.861][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-24 07:52:19.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.867][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.872][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.878][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:19.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:19.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.895][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-24 07:52:19.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-24 07:52:19.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-24 07:52:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-24 07:52:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:19.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.935][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.946][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-24 07:52:19.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-24 07:52:19.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:19.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:19.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:19.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:19.997][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:19.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:20.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.004][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:20.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:20.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.010][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:20.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-24 07:52:20.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.016][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:20.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:20.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:20.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:20.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-24 07:52:20.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-24 07:52:20.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.034][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:20.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.046][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.057][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-24 07:52:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-24 07:52:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:20.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:20.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:20.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:20.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:20.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:20.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:20.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:20.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-24 07:52:20.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-24 07:52:20.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.102][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:20.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:20.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:20.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:20.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.130][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:20.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-24 07:52:20.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-24 07:52:20.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-24 07:52:20.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:20.174][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-02-24 07:52:20.176][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.181][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.187][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:20.199][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:20.200][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:20.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:20.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:20.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:20.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:20.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:20.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:20.216][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[2023-02-24 07:52:20.232][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-24 07:52:20.234][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-02-24 07:52:20.235][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-02-24 07:52:20.237][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:20.239][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:20.241][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:20.243][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:20.245][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:20.250][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:20.252][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:20.253][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:20.255][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:20.256][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-24 07:52:20.258][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-24 07:52:20.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.266][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.277][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.292][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.298][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.304][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:20.309][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:20.311][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-24 07:52:20.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:20.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:20.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:20.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:20.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:20.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:20.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:20.328][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.334][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.345][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.362][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:20.368][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-02-24 07:52:20.369][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-24 07:52:20.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:20.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:20.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:20.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:20.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:20.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:20.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-24 07:52:20.399][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-24 07:52:20.400][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-02-24 07:52:20.402][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-02-24 07:52:20.404][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:20.406][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:20.408][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-24 07:52:20.409][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-24 07:52:20.411][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-24 07:52:20.416][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-24 07:52:20.417][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-24 07:52:20.419][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-24 07:52:20.420][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-24 07:52:20.422][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-24 07:52:20.423][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-24 07:52:20.425][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.431][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.445][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.451][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.457][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.467][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:20.473][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-02-24 07:52:20.474][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-02-24 07:52:20.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:20.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:20.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:20.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:20.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:20.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:20.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-24 07:52:20.491][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.496][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.502][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.507][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.513][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.518][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-24 07:52:20.523][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-24 07:52:20.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-24 07:52:20.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-24 07:52:20.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-24 07:52:20.529][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-24 07:52:20.531][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-24 07:52:20.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-24 07:52:20.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:20.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:20.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:20.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:20.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:20.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-24 07:52:20.552][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-24 07:52:20.554][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-24 07:52:20.556][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-24 07:52:20.557][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-24 07:52:20.558][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-24 07:52:20.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-24 07:52:20.561][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-24 07:52:20.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-24 07:52:20.563][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-24 07:52:20.564][FUN] Functions in observer 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 186 ]
>
> proc.time()
user system elapsed
12.634 0.487 17.762
biodbHmdb.Rcheck/biodbHmdb-Ex.timings
| name | user | system | elapsed | |
| HmdbMetabolitesConn | 2.405 | 0.739 | 7.565 | |
| HmdbMetabolitesEntry | 0.412 | 0.009 | 0.421 | |