| Back to Build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-03-27 05:50:30 -0000 (Mon, 27 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6083 |
| 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 195/2195 | 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/site-library --timings biodbHmdb_1.5.0.tar.gz |
| StartedAt: 2023-03-24 21:55:52 -0000 (Fri, 24 Mar 2023) |
| EndedAt: 2023-03-24 21:57:09 -0000 (Fri, 24 Mar 2023) |
| EllapsedTime: 77.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbHmdb_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.5.0’
* 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 6.6Mb
sub-directories of 1Mb or more:
libs 6.0Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘biodbHmdb.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL biodbHmdb ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘biodbHmdb’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’ g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c Tag.cpp -o Tag.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c extractXmlEntries.cpp -o extractXmlEntries.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c test-100-tag.cpp -o test-100-tag.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c test-runner.cpp -o test-runner.o g++ -std=gnu++17 -shared -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o installing to /home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2023-03-24 21:56:41.794][biodb::testContext]
biodb.INFO [2023-03-24 21:56:41.797][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:41.798][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-03-24 21:56:41.800][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:41.801][biodb::testContext]
biodb.INFO [2023-03-24 21:56:41.803][biodb::testThat]
biodb.INFO [2023-03-24 21:56:41.804][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-03-24 21:56:41.806][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:41.807][biodb::testThat]
biodb.INFO [2023-03-24 21:56:41.932][biodb::testContext]
biodb.INFO [2023-03-24 21:56:41.933][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:41.935][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-03-24 21:56:41.936][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:41.937][biodb::testContext]
biodb.INFO [2023-03-24 21:56:41.958][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:41.960][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:41.969][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:41.970][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:56:41.972][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:56:41.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:41.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:41.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:41.977][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:56:42.001][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:56:42.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.005][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[2023-03-24 21:56:42.006][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:56:42.008][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:56:42.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.013][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:56:42.014][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:56:42.016][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:56:42.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.020][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[2023-03-24 21:56:42.021][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:56:42.022][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:56:42.024][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:56:42.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.039][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:56:42.040][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:56:42.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.045][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:56:42.047][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:56:42.048][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:56:42.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.053][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:56:42.054][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:56:42.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.058][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[2023-03-24 21:56:42.059][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:56:42.061][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:56:42.062][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:56:42.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.067][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:42.068][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:56:42.070][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:56:42.071][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:56:42.073][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:56:42.074][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:56:42.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.079][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:56:42.081][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:56:42.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.086][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:56:42.087][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:56:42.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.092][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:56:42.093][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:56:42.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.098][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:56:42.100][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:56:42.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.105][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:56:42.106][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:56:42.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.111][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:42.113][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:56:42.117][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:56:42.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.122][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:56:42.123][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:56:42.125][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:56:42.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.133][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:56:42.177][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.198][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-03-24 21:56:42.200][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.201][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:42.203][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.204][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.205][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.207][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.208][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:42.210][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:42.211][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.212][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:56:42.214][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:42.215][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.216][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.218][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:42.218][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:42.218][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:42.218][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:42.218][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:42.219][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:42.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.222][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.223][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:42.224][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.227][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.228][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.230][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:42.231][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:42.232][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.234][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.235][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:56:42.238][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.239][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:42.240][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.242][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:42.243][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.244][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.247][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.248][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:42.250][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:42.259][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.261][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:56:42.262][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:42.263][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.265][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.266][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:42.266][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:42.266][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:42.266][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:42.266][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:42.267][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:42.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.271][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:42.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.275][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.277][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.278][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:42.279][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:42.280][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.282][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.283][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:56:42.286][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.287][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-03-24 21:56:42.288][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.290][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:42.291][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.293][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.294][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.295][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.297][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:42.298][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:42.299][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.301][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:56:42.302][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:42.304][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.305][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.306][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.308][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:42.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.312][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:42.313][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.314][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.315][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.317][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.318][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:42.319][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:42.321][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.322][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.324][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:56:42.326][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.327][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:42.329][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.330][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:42.331][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.333][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.334][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.336][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.337][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:42.338][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:42.340][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.341][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:56:42.342][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:42.344][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.345][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.346][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.348][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:42.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.352][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:42.353][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.356][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.357][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.358][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:42.359][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:42.361][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.362][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.367][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:42.369][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.376][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[2023-03-24 21:56:42.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.382][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[2023-03-24 21:56:42.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.394][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[2023-03-24 21:56:42.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.437][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[2023-03-24 21:56:42.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.474][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:56:42.487][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:56:42.489][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:56:42.491][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:56:42.493][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:42.495][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:42.497][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:42.499][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:42.501][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:56:42.503][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:42.505][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:42.507][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:56:42.509][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:42.511][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:42.512][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:56:42.514][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:42.516][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:56:42.518][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:56:42.520][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:42.522][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:56:42.524][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:56:42.526][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:56:42.528][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:56:42.530][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:56:42.532][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:56:42.534][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:56:42.536][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:56:42.538][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:56:42.540][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:56:42.541][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:56:42.543][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:56:42.545][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:56:42.547][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:56:42.549][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:56:42.551][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:56:42.553][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:56:42.555][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:56:42.557][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:56:42.559][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:56:42.560][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:56:42.562][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:56:42.564][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:56:42.566][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:56:42.568][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:56:42.570][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:56:42.572][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:56:42.574][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:56:42.576][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:56:42.578][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:56:42.580][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:56:42.581][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:56:42.583][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:56:42.585][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:56:42.587][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:56:42.589][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:56:42.591][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:56:42.593][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:56:42.595][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:56:42.597][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:56:42.599][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:56:42.600][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:56:42.602][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:56:42.604][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:56:42.606][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:56:42.608][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:56:42.610][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:56:42.612][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:42.614][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:42.616][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:56:42.617][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:56:42.619][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:56:42.621][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:56:42.623][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:56:42.625][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:56:42.627][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:56:42.629][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:56:42.631][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:56:42.633][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:56:42.635][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:56:42.636][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:56:42.638][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:56:42.640][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:56:42.642][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:56:42.650][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:56:42.652][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:42.656][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:42.657][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.660][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.661][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[2023-03-24 21:56:42.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.674][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[2023-03-24 21:56:42.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.761][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[2023-03-24 21:56:42.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:42.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:42.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:42.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:42.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:42.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:42.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:42.842][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:42.854][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:42.857][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.858][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.860][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.861][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:42.862][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.864][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-03-24 21:56:42.865][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.866][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.868][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:56:42.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:42.870][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.871][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-03-24 21:56:42.873][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-03-24 21:56:42.874][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-03-24 21:56:42.876][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:42.877][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:42.877][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-03-24 21:56:42.878][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:56:42.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.882][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:42.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:42.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:42.886][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:42.887][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-03-24 21:56:42.887][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-03-24 21:56:42.888][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:42.889][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:42.891][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:42.892][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:42.900][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:42.902][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:42.904][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:42.906][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:42.943][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:42.945][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-03-24 21:56:42.950][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:42.955][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:42.961][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:42.962][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:42.964][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-03-24 21:56:42.965][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-03-24 21:56:42.966][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-03-24 21:56:42.966][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-03-24 21:56:42.968][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:42.969][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:42.970][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-03-24 21:56:42.971][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-03-24 21:56:42.972][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:42.995][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:42.997][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:42.998][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:43.000][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:43.001][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:43.002][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-03-24 21:56:43.022][biodb::testThat]
biodb.INFO [2023-03-24 21:56:43.023][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-03-24 21:56:43.024][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:43.025][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:43.031][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-03-24 21:56:43.037][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:43.042][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:43.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:43.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:43.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:43.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:43.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:43.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:43.065][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.TRACE[2023-03-24 21:56:43.079][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.081][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.082][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.083][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.109][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.111][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.112][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.113][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.159][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.168][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.169][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.171][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.172][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.174][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.185][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.187][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.197][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.199][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.200][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.201][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.213][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.214][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.216][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.218][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.226][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.228][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.229][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.230][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.232][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.241][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.242][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.244][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.245][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.255][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.257][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.258][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.259][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.261][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.270][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:43.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:43.273][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.274][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:43.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:43.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:43.286][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:43.287][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.288][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:43.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:43.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.299][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.300][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.302][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.303][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.313][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.317][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.335][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.336][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.339][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.349][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:43.351][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:43.352][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.353][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.355][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:43.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:43.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.364][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:43.365][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:43.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.368][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:43.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:43.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.379][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:43.380][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.382][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.383][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.385][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:43.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.455][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.465][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:43.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.470][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.475][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.480][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:43.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:43.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:43.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.524][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.530][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.535][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:43.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.551][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:43.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.556][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.562][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.567][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:43.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.572][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:43.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:43.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.577][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:43.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:43.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.583][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:43.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:43.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.588][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:43.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:43.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.593][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:43.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:43.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.599][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:43.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:43.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:43.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:43.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:43.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:43.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:43.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:43.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.636][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.641][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:43.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:43.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.690][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.696][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.701][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:43.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.707][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:43.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:43.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:43.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:43.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.717][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:43.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:43.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.723][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:43.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.744][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:43.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:43.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:43.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.807][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.813][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.823][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:43.873][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-03-24 21:56:43.880][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:56:43.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:56:43.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.886][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:56:43.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:56:43.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-03-24 21:56:43.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-03-24 21:56:43.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.897][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-03-24 21:56:43.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-03-24 21:56:43.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.933][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:43.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:43.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.979][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.984][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:43.990][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:43.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:43.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:44.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:44.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:44.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:44.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.030][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:44.031][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:44.033][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.034][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.068][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.069][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.072][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.089][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.094][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.100][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.106][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.107][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.108][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.110][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.111][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.147][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.168][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.174][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.182][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.183][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.184][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:44.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:44.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:44.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:44.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:44.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:44.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.223][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:44.224][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:44.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.227][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:44.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:44.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.244][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:44.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:44.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:44.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:44.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.255][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:44.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:44.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.260][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:44.262][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:44.263][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.264][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.266][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:44.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:44.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:44.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:44.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:44.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:44.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.298][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:44.299][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:44.300][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.302][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.303][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:44.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:44.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.318][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.324][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.329][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.335][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.336][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.339][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.340][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.372][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.373][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.375][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.376][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.400][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.405][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.411][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.416][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.418][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.419][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.421][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.422][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.443][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.454][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.455][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.457][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.458][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.459][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.480][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.491][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.493][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.494][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.495][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.497][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.512][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:44.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:44.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.517][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:44.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.523][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:44.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:44.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.528][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:44.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:44.531][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.532][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.533][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:44.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:44.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:44.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:44.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:44.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:44.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:44.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:44.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:44.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:44.575][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.576][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:44.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:44.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.611][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.612][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.613][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.630][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.635][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.641][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.646][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.648][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.649][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.650][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.652][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.667][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:44.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:44.670][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.671][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.679][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.680][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:44.681][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.683][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.690][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.692][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:44.693][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.694][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.702][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:44.705][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.706][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.713][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.715][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:44.716][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.718][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.725][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.726][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:44.728][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.729][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.744][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.745][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:44.746][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.748][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.755][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.757][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:44.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.759][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.767][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:44.768][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:44.769][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.771][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.778][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:44.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:44.781][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.782][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.790][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:44.791][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:44.793][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.794][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.801][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.803][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:44.804][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.805][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.814][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:44.816][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.817][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.824][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.826][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:44.827][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.828][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.836][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:44.837][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:44.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.840][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.847][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.848][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:44.850][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.851][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:44.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:44.860][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:44.861][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:44.862][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:44.871][biodb::testThat]
biodb.INFO [2023-03-24 21:56:44.872][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-03-24 21:56:44.873][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:44.875][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:44.893][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-03-24 21:56:44.910][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2023-03-24 21:56:44.916][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-03-24 21:56:44.917][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-03-24 21:56:44.919][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-03-24 21:56:44.920][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-03-24 21:56:44.922][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-03-24 21:56:44.924][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-03-24 21:56:44.926][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-03-24 21:56:44.928][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-03-24 21:56:44.930][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-03-24 21:56:44.932][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker346356532fdf84marker".
biodb.TRACE[2023-03-24 21:56:44.933][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-03-24 21:56:44.935][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-03-24 21:56:44.937][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-03-24 21:56:44.938][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-03-24 21:56:44.940][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2023-03-24 21:56:44.942][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-03-24 21:56:44.943][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2023-03-24 21:56:44.946][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-03-24 21:56:44.947][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-03-24 21:56:44.949][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-03-24 21:56:44.951][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2023-03-24 21:56:44.959][self$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[2023-03-24 21:56:44.960][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-03-24 21:56:44.962][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-03-24 21:56:44.963][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-03-24 21:56:44.966][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker34635642455643marker".
biodb.TRACE[2023-03-24 21:56:44.967][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-03-24 21:56:44.968][self$addFilesToCache] Done adding files.
biodb.TRACE[2023-03-24 21:56:44.970][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-03-24 21:56:44.972][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:44.974][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-03-24 21:56:44.976][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:45.032][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:45.034][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:45.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:45.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:45.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:45.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:45.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:45.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:45.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:45.054][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.058][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.068][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.070][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.072][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.074][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.091][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.093][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.094][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.095][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.097][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.109][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.110][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.120][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.122][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.123][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.125][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.138][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.139][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.141][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.150][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.151][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.152][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.154][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.155][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.164][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.165][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.167][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.168][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.179][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.180][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.181][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.183][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.193][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:45.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:45.196][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.197][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:45.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:45.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:45.209][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:45.210][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.211][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:45.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:45.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.223][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.225][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.226][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.239][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.240][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.258][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.260][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.261][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.262][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.272][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.274][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.275][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.276][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.278][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:45.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:45.290][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.291][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:45.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:45.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.302][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:45.303][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.306][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.307][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.333][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.338][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.344][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:45.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.349][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.355][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.360][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:45.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.398][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.404][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.409][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:45.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.427][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:45.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.450][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:45.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.461][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.467][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:45.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:45.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:45.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:45.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:45.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:45.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:45.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:45.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:45.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:45.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:45.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.533][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.545][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:45.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.587][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.593][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.599][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:45.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.619][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:45.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.625][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:45.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.631][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:45.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:45.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.636][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:45.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.660][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:45.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:45.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.702][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:45.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:45.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.707][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:45.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:45.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.718][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:45.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:45.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:45.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:45.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:45.760][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-03-24 21:56:45.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-03-24 21:56:45.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-03-24 21:56:45.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-03-24 21:56:45.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-03-24 21:56:45.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-03-24 21:56:45.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-03-24 21:56:45.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:45.793][biodb::testThat]
biodb.INFO [2023-03-24 21:56:45.794][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-03-24 21:56:45.795][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:45.796][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:45.800][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.801][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.803][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.804][ef$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:45.806][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-03-24 21:56:45.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:45.862][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-03-24 21:56:45.873][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-03-24 21:56:45.874][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-03-24 21:56:45.876][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-03-24 21:56:45.878][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:45.880][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:45.882][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:45.883][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:45.885][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:45.890][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:45.891][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:45.893][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:45.894][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:45.896][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-03-24 21:56:45.897][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-03-24 21:56:45.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:45.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:45.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:45.921][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:45.922][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-03-24 21:56:45.923][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-03-24 21:56:45.942][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.951][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.954][ef$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:45.955][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-03-24 21:56:45.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.980][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:45.986][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:45.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:45.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:45.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:45.993][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[2023-03-24 21:56:46.073][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-03-24 21:56:46.075][private$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[2023-03-24 21:56:46.076][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-03-24 21:56:46.103][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:46.105][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:46.107][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:46.108][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:46.110][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:46.134][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:46.136][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:46.137][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:46.138][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:46.139][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-03-24 21:56:46.141][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-03-24 21:56:46.143][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:46.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:46.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.148][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:46.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.154][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:46.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:46.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:46.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:46.164][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:46.166][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-03-24 21:56:46.167][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-03-24 21:56:46.186][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.188][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-03-24 21:56:46.189][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:46.190][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:46.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:46.257][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-03-24 21:56:46.259][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-03-24 21:56:46.260][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-03-24 21:56:46.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:46.264][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:46.266][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:46.267][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:46.269][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:46.274][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:46.275][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:46.276][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:46.277][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:46.279][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-03-24 21:56:46.280][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-03-24 21:56:46.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:46.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:46.303][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:46.304][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-03-24 21:56:46.323][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.325][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-03-24 21:56:46.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:46.327][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.370][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-03-24 21:56:46.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-03-24 21:56:46.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.376][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-03-24 21:56:46.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-03-24 21:56:46.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:56:46.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.477][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-03-24 21:56:46.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-03-24 21:56:46.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:46.482][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-03-24 21:56:46.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-03-24 21:56:46.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:46.491][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.492][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-03-24 21:56:46.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:46.495][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.501][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.502][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-03-24 21:56:46.503][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:46.505][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.511][biodb::testThat]
biodb.INFO [2023-03-24 21:56:46.512][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-03-24 21:56:46.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:46.515][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:46.519][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-03-24 21:56:48.822][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-03-24 21:56:49.353][biodb::testThat]
biodb.INFO [2023-03-24 21:56:49.355][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-03-24 21:56:49.356][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:49.357][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:51.166][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-03-24 21:56:51.700][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:51.701][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:51.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.704][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.705][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:51.707][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:51.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.709][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:51.712][biodb::testThat]
biodb.INFO [2023-03-24 21:56:51.713][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-03-24 21:56:51.714][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:51.715][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:51.718][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-03-24 21:56:51.784][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-03-24 21:56:51.798][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:51.803][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-03-24 21:56:51.826][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-03-24 21:56:51.828][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-03-24 21:56:51.829][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-03-24 21:56:51.830][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:51.832][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:51.854][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:51.855][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:51.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:51.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:51.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:51.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:51.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:51.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:51.870][FUN] Functions in observer BiodbConfig: [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[2023-03-24 21:56:51.872][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:51.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:51.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.877][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:51.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:51.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:51.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:51.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:51.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:51.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:51.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:51.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:51.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:51.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:51.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:51.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:51.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:51.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:51.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:51.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:51.912][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-03-24 21:56:51.913][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-03-24 21:56:51.940][biodb::testThat]
biodb.INFO [2023-03-24 21:56:51.942][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-03-24 21:56:51.943][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:51.944][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:51.952][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-03-24 21:56:51.954][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-03-24 21:56:51.955][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-03-24 21:56:51.957][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:51.959][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-03-24 21:56:51.961][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-03-24 21:56:51.963][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-03-24 21:56:51.964][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-03-24 21:56:51.966][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:51.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:51.991][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:51.992][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:51.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:51.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:51.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.007][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.TRACE[2023-03-24 21:56:52.009][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:52.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:52.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.014][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:52.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:52.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:52.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:52.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:52.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:52.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:52.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:52.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:52.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:52.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:52.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:52.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:52.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:52.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:52.057][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-03-24 21:56:52.058][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-03-24 21:56:52.059][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-03-24 21:56:52.074][biodb::testThat]
biodb.INFO [2023-03-24 21:56:52.076][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-03-24 21:56:52.077][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:52.078][biodb::testThat]
biodb.INFO [2023-03-24 21:56:52.102][biodb::testThat]
biodb.INFO [2023-03-24 21:56:52.107][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-03-24 21:56:52.108][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:52.110][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:52.114][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:52.116][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:52.118][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:52.120][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:52.121][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:52.128][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:52.129][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:52.131][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:52.132][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-03-24 21:56:52.141][biodb::testThat]
biodb.INFO [2023-03-24 21:56:52.143][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-03-24 21:56:52.144][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:52.145][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:52.149][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:52.151][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:52.152][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:52.154][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:52.156][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:52.161][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:52.163][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:52.164][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:52.165][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-03-24 21:56:52.196][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:52.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:52.199][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.200][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:52.201][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:52.203][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:52.204][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:52.205][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:52.207][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:52.208][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-03-24 21:56:52.220][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-03-24 21:56:52.221][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:52.222][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.225][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.227][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:52.233][biodb::testContext]
biodb.INFO [2023-03-24 21:56:52.234][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:52.235][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-03-24 21:56:52.237][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:52.238][biodb::testContext]
biodb.INFO [2023-03-24 21:56:52.246][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:52.248][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:52.253][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:52.254][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:56:52.255][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:56:52.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.260][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:56:52.261][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:56:52.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.264][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[2023-03-24 21:56:52.265][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:56:52.267][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:56:52.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.271][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:56:52.272][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:56:52.274][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:56:52.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.278][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:56:52.279][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:56:52.281][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:56:52.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.285][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:56:52.287][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:56:52.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.291][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:56:52.292][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:56:52.294][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:56:52.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.298][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:56:52.299][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:56:52.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.303][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[2023-03-24 21:56:52.304][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:56:52.305][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:56:52.306][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:56:52.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.319][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:52.320][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:56:52.321][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:56:52.323][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:56:52.324][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:56:52.325][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:56:52.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.329][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[2023-03-24 21:56:52.330][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:56:52.331][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:56:52.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.336][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:56:52.337][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:56:52.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.342][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:56:52.343][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:56:52.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.347][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:56:52.349][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:56:52.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.353][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:56:52.354][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:56:52.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.359][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:52.360][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:56:52.364][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:56:52.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.368][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:56:52.370][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:56:52.371][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:56:52.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.375][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:56:52.378][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.379][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-03-24 21:56:52.380][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.381][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:52.383][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.384][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.385][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.386][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.388][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:52.389][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:52.390][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.391][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:56:52.392][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:52.394][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.395][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.396][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:52.396][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:52.396][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:52.396][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:52.396][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:52.397][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:52.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.401][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:52.402][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.403][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.404][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.406][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.407][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:52.408][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:52.409][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.410][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.412][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:56:52.414][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.415][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:52.416][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.418][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:52.419][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.420][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.421][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.423][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.424][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:52.425][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:52.426][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.435][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:56:52.436][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:52.438][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.439][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.440][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:52.440][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:52.440][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:52.440][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:52.440][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:52.441][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:52.442][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.445][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:52.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.449][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.450][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:52.452][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:52.453][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.455][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.456][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:56:52.458][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.460][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-03-24 21:56:52.461][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.462][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:52.463][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.464][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.466][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.467][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.468][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:52.469][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:52.471][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.472][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:56:52.473][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:52.474][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.476][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.477][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.478][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:52.479][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.481][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:52.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.485][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.486][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.487][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:52.488][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:52.490][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.491][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.492][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:56:52.494][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.496][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:52.497][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.498][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:52.499][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.501][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.502][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.503][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.504][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:52.505][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:52.507][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.508][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:56:52.509][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:52.510][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.512][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.513][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.514][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:52.515][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.518][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:52.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.522][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.523][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:52.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:52.526][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.527][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.529][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:52.530][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.531][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[2023-03-24 21:56:52.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.583][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[2023-03-24 21:56:52.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.599][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[2023-03-24 21:56:52.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.616][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[2023-03-24 21:56:52.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.634][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:56:52.635][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:56:52.637][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:56:52.639][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:56:52.641][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:52.642][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:52.644][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:52.646][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:52.648][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:56:52.649][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:52.651][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:52.653][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:56:52.655][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:52.656][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:52.658][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:56:52.660][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:52.669][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:56:52.671][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:56:52.673][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:52.675][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:56:52.677][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:56:52.679][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:56:52.681][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:56:52.682][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:56:52.684][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:56:52.686][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:56:52.688][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:56:52.690][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:56:52.691][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:56:52.693][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:56:52.695][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:56:52.697][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:56:52.699][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:56:52.700][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:56:52.702][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:56:52.704][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:56:52.706][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:56:52.707][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:56:52.709][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:56:52.711][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:56:52.713][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:56:52.714][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:56:52.716][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:56:52.718][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:56:52.720][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:56:52.722][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:56:52.723][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:56:52.725][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:56:52.727][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:56:52.729][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:56:52.730][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:56:52.732][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:56:52.734][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:56:52.736][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:56:52.738][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:56:52.739][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:56:52.741][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:56:52.743][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:56:52.745][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:56:52.746][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:56:52.748][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:56:52.750][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:56:52.752][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:56:52.754][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:56:52.755][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:56:52.757][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:56:52.759][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:52.761][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:52.762][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:56:52.764][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:56:52.766][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:56:52.768][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:56:52.770][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:56:52.771][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:56:52.773][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:56:52.775][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:56:52.777][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:56:52.779][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:56:52.788][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:56:52.790][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:56:52.792][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:56:52.794][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:56:52.796][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:56:52.798][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:56:52.800][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:52.801][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:52.802][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.805][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:52.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:52.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:52.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:52.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:52.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:52.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:52.949][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:52.951][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:52.953][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.954][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.956][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.957][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:52.958][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.960][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-03-24 21:56:52.961][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.962][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.963][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:56:52.965][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:52.966][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.967][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-03-24 21:56:52.968][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-03-24 21:56:52.969][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-03-24 21:56:52.971][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:52.972][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:52.972][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-03-24 21:56:52.973][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:56:52.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.976][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.977][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:52.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:52.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:52.980][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:52.982][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-03-24 21:56:52.982][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-03-24 21:56:52.983][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:52.984][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:52.985][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:52.986][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:52.988][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:52.990][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:52.992][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:52.994][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:52.998][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:53.000][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-03-24 21:56:53.001][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:53.003][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:53.004][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:53.005][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:53.007][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-03-24 21:56:53.008][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-03-24 21:56:53.010][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-03-24 21:56:53.010][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-03-24 21:56:53.011][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:53.012][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:53.013][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-03-24 21:56:53.014][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-03-24 21:56:53.023][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:53.026][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:53.027][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:53.028][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:53.030][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:53.032][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:53.033][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-03-24 21:56:53.035][biodb::testThat]
biodb.INFO [2023-03-24 21:56:53.036][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-03-24 21:56:53.037][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:53.038][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:53.044][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:53.045][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:53.047][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:53.049][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:53.050][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:53.055][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:53.057][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:53.058][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:53.059][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:53.062][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-03-24 21:56:53.065][biodb::testThat]
biodb.INFO [2023-03-24 21:56:53.066][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-03-24 21:56:53.067][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:53.069][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:53.071][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-03-24 21:56:53.072][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-03-24 21:56:53.075][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:53.076][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-03-24 21:56:53.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-03-24 21:56:53.080][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:53.082][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-03-24 21:56:53.084][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:53.105][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:53.107][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:53.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:53.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:53.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:53.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:53.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:53.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.122][FUN] Functions in observer BiodbConfig: [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[2023-03-24 21:56:53.126][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.128][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.130][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.140][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.142][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.143][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.152][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.154][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.163][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.164][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.166][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.167][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.169][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.180][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.181][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.191][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.193][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.194][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.195][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.205][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.207][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.209][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.210][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.219][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.220][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.221][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.223][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.224][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.233][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.234][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.236][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.238][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.246][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.248][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.249][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.250][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.260][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:53.262][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:53.263][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.264][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.265][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:53.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:53.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.282][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:53.283][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:53.285][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.286][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:53.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:53.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.296][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.298][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.299][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.300][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.310][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.312][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.313][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.314][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.324][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.326][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.328][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.338][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:53.339][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:53.340][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.341][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.343][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:53.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:53.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:53.352][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:53.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.355][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:53.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:53.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.365][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:53.366][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.369][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.370][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:53.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.401][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.406][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.412][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:53.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.417][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.422][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.427][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:53.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:53.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:53.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.467][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.472][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:53.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.477][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.487][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:53.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.492][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.497][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:53.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.507][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:53.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:53.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:53.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:53.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.525][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:53.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:53.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:53.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:53.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:53.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:53.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.541][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:53.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:53.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:53.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:53.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:53.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:53.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:53.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:53.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.576][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.581][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.586][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:53.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:53.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.621][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.625][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.639][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:53.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.644][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:53.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:53.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.649][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:53.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:53.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.654][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:53.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:53.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.659][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:53.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.679][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:53.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:53.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:53.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:53.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.717][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:53.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:53.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.722][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:53.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:53.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.732][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:53.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:53.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:53.780][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-03-24 21:56:53.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:53.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:53.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:53.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:53.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:53.799][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:53.800][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-03-24 21:56:53.801][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-03-24 21:56:53.803][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:53.804][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:53.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:53.806][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:53.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:53.808][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:53.814][biodb::testContext]
biodb.INFO [2023-03-24 21:56:53.815][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:53.816][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-03-24 21:56:53.817][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:53.818][biodb::testContext]
biodb.INFO [2023-03-24 21:56:53.826][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:53.828][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:53.833][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:53.834][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:56:53.835][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:56:53.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.840][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:56:53.841][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:56:53.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.846][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:56:53.847][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:56:53.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.852][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:56:53.853][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:56:53.854][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:56:53.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.859][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:56:53.860][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:56:53.861][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:56:53.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.866][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:56:53.867][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:56:53.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.880][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:56:53.881][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:56:53.883][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:56:53.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.887][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:56:53.889][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:56:53.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.893][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:56:53.895][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:56:53.896][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:56:53.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.901][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:53.902][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:56:53.903][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:56:53.904][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:56:53.906][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:56:53.907][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:56:53.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.911][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:56:53.913][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:56:53.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.917][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:56:53.919][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:56:53.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.923][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:56:53.924][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:56:53.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.929][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:56:53.930][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:56:53.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.935][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:56:53.936][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:56:53.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.941][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:53.942][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:56:53.946][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:56:53.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:53.950][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:56:53.952][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:56:53.953][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:56:53.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:53.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:53.956][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[2023-03-24 21:56:53.958][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:56:53.960][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:53.961][self$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[2023-03-24 21:56:53.962][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:53.964][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:53.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:53.966][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:53.967][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:53.969][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:53.970][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:53.971][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:53.972][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:53.974][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:56:53.975][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:53.976][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:53.977][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:53.979][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:53.979][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:53.979][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:53.979][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:53.979][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:53.980][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:53.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:53.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:53.983][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:53.985][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:53.986][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:53.987][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:53.988][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.012][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:54.014][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:54.015][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.016][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.018][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:56:54.020][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.022][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:54.023][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.024][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:54.025][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.027][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.028][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.029][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.031][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:54.032][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:54.033][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.034][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:56:54.036][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:54.037][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.038][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.039][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:54.039][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:54.039][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:54.039][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:54.039][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:54.041][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:54.042][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.043][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.044][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:54.046][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.047][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.048][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.049][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.050][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:54.051][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:54.053][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.054][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.055][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:56:54.058][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.059][self$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[2023-03-24 21:56:54.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.061][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:54.063][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.064][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.065][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.066][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.067][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:54.069][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:54.070][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.071][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:56:54.072][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:54.074][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.075][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.076][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.077][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:54.079][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.080][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.081][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:54.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.084][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.086][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.087][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:54.088][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:54.089][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.090][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.092][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:56:54.094][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.095][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:54.097][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.098][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:54.099][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.100][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.102][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.103][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.104][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:54.105][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:54.107][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.108][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:56:54.109][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:54.110][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.112][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.113][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.114][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:54.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.118][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:54.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.121][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.122][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.124][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:54.133][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:54.134][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.136][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.138][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:54.139][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.224][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[2023-03-24 21:56:54.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.237][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:56:54.238][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:56:54.240][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:56:54.242][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:56:54.244][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:54.254][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:54.256][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:54.258][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:54.260][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:56:54.262][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:54.264][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:54.266][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:56:54.267][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:54.269][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:54.271][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:56:54.273][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:54.275][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:56:54.277][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:56:54.278][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:54.280][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:56:54.282][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:56:54.284][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:56:54.286][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:56:54.288][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:56:54.290][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:56:54.291][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:56:54.293][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:56:54.295][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:56:54.297][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:56:54.299][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:56:54.300][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:56:54.302][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:56:54.304][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:56:54.306][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:56:54.308][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:56:54.309][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:56:54.311][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:56:54.313][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:56:54.315][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:56:54.317][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:56:54.319][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:56:54.320][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:56:54.322][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:56:54.324][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:56:54.326][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:56:54.328][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:56:54.330][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:56:54.331][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:56:54.333][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:56:54.335][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:56:54.337][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:56:54.339][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:56:54.340][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:56:54.342][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:56:54.344][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:56:54.346][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:56:54.348][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:56:54.350][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:56:54.351][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:56:54.353][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:56:54.355][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:56:54.357][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:56:54.358][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:56:54.360][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:56:54.362][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:56:54.364][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:56:54.366][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:54.375][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:54.377][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:56:54.379][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:56:54.381][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:56:54.383][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:56:54.385][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:56:54.387][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:56:54.389][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:56:54.391][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:56:54.393][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:56:54.395][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:56:54.396][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:56:54.398][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:56:54.400][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:56:54.402][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:56:54.404][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:56:54.406][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:56:54.408][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:54.409][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:54.410][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.412][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.437][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[2023-03-24 21:56:54.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:54.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:54.557][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:54.559][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:54.561][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.563][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.564][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.565][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:54.566][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.568][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-03-24 21:56:54.569][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.570][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.571][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:56:54.573][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:54.574][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.575][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-03-24 21:56:54.576][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-03-24 21:56:54.578][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-03-24 21:56:54.579][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:54.580][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:54.580][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-03-24 21:56:54.581][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:56:54.583][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.584][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.585][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:54.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:54.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:54.589][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:54.590][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-03-24 21:56:54.590][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-03-24 21:56:54.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:54.592][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:54.593][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:54.595][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:54.596][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:54.598][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:54.600][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:54.602][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:54.614][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:54.616][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-03-24 21:56:54.617][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:54.619][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:54.621][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:54.622][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:54.624][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-03-24 21:56:54.625][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-03-24 21:56:54.626][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-03-24 21:56:54.626][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-03-24 21:56:54.628][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:54.629][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:54.630][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-03-24 21:56:54.631][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-03-24 21:56:54.633][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-03-24 21:56:54.635][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:54.636][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:54.638][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:54.639][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-03-24 21:56:54.641][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:54.642][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-03-24 21:56:54.644][biodb::testThat]
biodb.INFO [2023-03-24 21:56:54.645][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-03-24 21:56:54.646][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:54.647][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:54.660][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-03-24 21:56:54.661][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-03-24 21:56:54.663][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-03-24 21:56:54.667][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:54.668][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:54.670][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:54.672][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:54.673][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:54.678][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:54.680][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:54.681][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:54.682][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:54.683][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-03-24 21:56:54.685][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-03-24 21:56:54.687][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-03-24 21:56:54.688][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-03-24 21:56:54.690][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:54.692][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-03-24 21:56:54.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-03-24 21:56:54.696][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:54.698][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-03-24 21:56:54.700][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:54.722][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:54.723][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:54.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:54.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:54.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:54.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:54.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:54.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:54.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:54.752][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:54.753][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:54.754][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.755][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:54.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:54.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.766][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:54.767][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:54.768][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.770][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.771][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:54.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:54.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.780][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:54.782][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:54.783][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.784][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.786][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:54.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:54.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:54.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:54.797][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.798][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:54.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:54.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.808][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:54.810][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:54.811][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.812][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:54.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:54.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.822][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:54.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:54.825][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.826][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.828][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:54.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:54.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.837][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:54.838][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:54.839][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.840][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.842][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:54.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:54.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.851][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:54.852][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:54.853][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.855][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.856][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:54.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:54.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.873][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:54.875][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:54.876][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.877][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.879][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:54.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:54.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.888][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:54.889][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:54.891][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.892][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:54.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:54.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.902][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:54.904][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:54.905][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.906][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:54.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:54.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.916][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:54.918][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:54.919][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.920][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:54.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:54.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:54.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:54.934][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.935][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:54.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:54.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.946][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:54.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:54.948][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.950][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:54.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:54.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.960][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:54.961][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:54.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.963][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.965][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:54.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:54.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:54.975][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:54.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.977][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.979][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:54.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:54.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:54.987][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:54.989][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:54.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:54.999][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.002][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:55.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.027][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.032][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.037][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.042][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.047][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.052][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.086][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.091][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.096][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.101][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.106][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.111][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.135][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.141][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.146][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.151][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.156][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.201][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.206][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.211][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.255][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.260][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.265][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:55.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:55.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.275][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:55.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:55.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:55.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:55.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.286][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:55.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.306][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:55.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.345][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:55.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.350][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:55.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:55.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.369][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:55.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:55.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:55.409][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-03-24 21:56:55.411][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.416][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.426][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:55.431][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:55.433][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-03-24 21:56:55.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:55.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:55.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:55.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:55.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:55.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:55.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:55.448][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-03-24 21:56:55.450][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-03-24 21:56:55.452][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:55.454][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-03-24 21:56:55.456][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-03-24 21:56:55.458][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:55.460][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-03-24 21:56:55.461][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:55.492][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:55.494][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-03-24 21:56:55.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:55.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:55.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:55.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:55.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:55.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:55.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:55.513][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.516][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.517][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.527][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.529][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.530][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.531][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.533][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.541][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.543][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.544][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.545][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.547][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.558][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.559][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.569][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.571][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.572][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.573][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.583][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.585][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.586][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.587][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.589][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.597][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.599][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.600][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.601][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.603][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:55.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.620][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.622][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.623][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.625][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.635][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.637][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.639][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.650][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.652][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.654][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.664][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.665][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.666][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.668][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.678][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.680][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.682][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.692][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.693][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.695][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.696][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.706][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.710][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:55.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:55.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.720][ef$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.722][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.724][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.726][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.734][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:55.744][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:55.745][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.747][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:55.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:55.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.758][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:55.759][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.762][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.763][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-03-24 21:56:55.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:55.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:55.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.788][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.793][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.798][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:55.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.803][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.808][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.813][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-03-24 21:56:55.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:55.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-03-24 21:56:55.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.849][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.854][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-03-24 21:56:55.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.878][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-03-24 21:56:55.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.888][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.893][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-03-24 21:56:55.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.903][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.908][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:55.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:55.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.923][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:55.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:55.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:55.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:55.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:55.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.968][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.973][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:55.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:55.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:55.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:55.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:56.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.013][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.018][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:56.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:56.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.023][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:56.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:56.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.029][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:56.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-03-24 21:56:56.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:56.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:56.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:56.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:56.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:56.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:56.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.070][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-03-24 21:56:56.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:56.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:56.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:56.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.134][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:56.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:56.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.145][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:56.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:56.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.160][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:56.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-03-24 21:56:56.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:56.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:56.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:56.206][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-03-24 21:56:56.208][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.214][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.220][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:56.231][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:56.233][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:56.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:56.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:56.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:56.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:56.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:56.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:56.251][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[2023-03-24 21:56:56.283][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-03-24 21:56:56.285][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-03-24 21:56:56.286][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-03-24 21:56:56.289][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:56.291][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:56.293][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:56.295][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:56.296][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:56.301][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:56.303][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:56.304][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:56.305][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:56.307][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-03-24 21:56:56.308][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-03-24 21:56:56.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.316][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.321][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.327][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.332][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.338][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.343][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:56.349][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:56.350][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-03-24 21:56:56.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:56.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:56.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:56.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:56.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:56.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:56.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:56.366][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.372][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.377][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.383][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.388][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.399][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:56.413][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-03-24 21:56:56.415][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-03-24 21:56:56.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:56.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:56.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:56.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:56.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:56.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:56.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:56.444][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-03-24 21:56:56.446][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-03-24 21:56:56.447][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-03-24 21:56:56.449][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:56.451][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:56.453][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-03-24 21:56:56.455][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-03-24 21:56:56.456][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-03-24 21:56:56.461][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-03-24 21:56:56.463][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-03-24 21:56:56.464][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-03-24 21:56:56.465][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-03-24 21:56:56.467][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-03-24 21:56:56.468][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-03-24 21:56:56.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.476][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.482][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.493][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.498][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.504][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:56.509][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-03-24 21:56:56.510][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-03-24 21:56:56.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:56.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:56.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:56.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:56.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:56.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:56.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:56.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.541][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.552][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.558][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.563][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:56.569][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-03-24 21:56:56.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-03-24 21:56:56.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:56.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:56.574][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-03-24 21:56:56.576][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-03-24 21:56:56.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:56.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:56.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:56.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:56.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:56.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:56.591][FUN] Functions in observer BiodbConfig: [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 [2023-03-24 21:56:56.595][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:56.597][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-03-24 21:56:56.599][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-03-24 21:56:56.600][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:56.601][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:56.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:56.603][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:56.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:56.606][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:56.607][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 186 ]
>
> proc.time()
user system elapsed
12.414 0.387 17.401
biodbHmdb.Rcheck/biodbHmdb-Ex.timings
| name | user | system | elapsed | |
| HmdbMetabolitesConn | 2.632 | 0.308 | 2.941 | |
| HmdbMetabolitesEntry | 0.404 | 0.004 | 0.409 | |