| Back to Build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-05-26 06:18:05 -0000 (Fri, 26 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4254 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 193/2197 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.7.0 (landing page) Pierrick Roger
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | |||||||||
| Package: biodbHmdb |
| Version: 1.7.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings biodbHmdb_1.7.0.tar.gz |
| StartedAt: 2023-05-26 04:07:26 -0000 (Fri, 26 May 2023) |
| EndedAt: 2023-05-26 04:08:56 -0000 (Fri, 26 May 2023) |
| EllapsedTime: 90.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings biodbHmdb_1.7.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.7.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘g++ (GCC) 10.3.1’
* checking installed package size ... NOTE
installed size is 8.1Mb
sub-directories of 1Mb or more:
libs 7.6Mb
* 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 loading without being on the library search path ... 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-3.18-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL biodbHmdb ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-library’ * installing *source* package ‘biodbHmdb’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 10.3.1’ g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.3.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.3.0/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.3.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.3.0/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c Tag.cpp -o Tag.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.3.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.3.0/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c extractXmlEntries.cpp -o extractXmlEntries.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.3.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.3.0/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/R/R-4.3.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.3.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.3.0/library/testthat/include' -I/usr/local/include -fPIC -g -O2 -c test-runner.cpp -o test-runner.o g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.3.0/lib -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o -L/home/biocbuild/R/R-4.3.0/lib -lR installing to /home/biocbuild/R/R-4.3.0/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 version 4.3.0 (2023-04-21) -- "Already Tomorrow"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2023-05-26 04:08:33.278][biodb::testContext]
biodb.INFO [2023-05-26 04:08:33.280][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:33.282][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-05-26 04:08:33.283][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:33.284][biodb::testContext]
biodb.INFO [2023-05-26 04:08:33.286][biodb::testThat]
biodb.INFO [2023-05-26 04:08:33.288][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-05-26 04:08:33.289][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:33.290][biodb::testThat]
biodb.INFO [2023-05-26 04:08:33.419][biodb::testContext]
biodb.INFO [2023-05-26 04:08:33.420][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:33.421][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-05-26 04:08:33.423][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:33.424][biodb::testContext]
biodb.INFO [2023-05-26 04:08:33.443][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-05-26 04:08:33.446][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-05-26 04:08:33.455][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:33.456][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-05-26 04:08:33.457][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-05-26 04:08:33.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.463][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-05-26 04:08:33.488][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-05-26 04:08:33.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.493][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-05-26 04:08:33.494][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-05-26 04:08:33.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.499][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-05-26 04:08:33.501][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-05-26 04:08:33.502][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-05-26 04:08:33.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.507][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-05-26 04:08:33.508][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-05-26 04:08:33.510][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-05-26 04:08:33.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.515][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-05-26 04:08:33.516][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-05-26 04:08:33.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.521][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-05-26 04:08:33.522][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-05-26 04:08:33.524][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-05-26 04:08:33.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.529][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-05-26 04:08:33.530][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-05-26 04:08:33.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.535][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-05-26 04:08:33.536][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-05-26 04:08:33.538][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-05-26 04:08:33.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.542][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-05-26 04:08:33.544][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-05-26 04:08:33.545][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-05-26 04:08:33.557][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-05-26 04:08:33.558][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-05-26 04:08:33.560][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-05-26 04:08:33.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.565][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-05-26 04:08:33.566][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-05-26 04:08:33.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.571][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-05-26 04:08:33.573][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-05-26 04:08:33.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.578][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-05-26 04:08:33.579][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-05-26 04:08:33.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.584][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-05-26 04:08:33.586][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-05-26 04:08:33.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.591][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-05-26 04:08:33.592][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-05-26 04:08:33.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.597][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-05-26 04:08:33.599][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-05-26 04:08:33.603][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-05-26 04:08:33.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.608][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-05-26 04:08:33.610][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-05-26 04:08:33.611][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-05-26 04:08:33.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.619][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-05-26 04:08:33.666][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.688][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-05-26 04:08:33.690][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.691][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:33.693][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.694][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.695][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.697][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.698][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-26 04:08:33.700][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:33.701][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.702][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-05-26 04:08:33.704][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:33.705][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.706][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.708][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:33.708][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-26 04:08:33.708][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-26 04:08:33.708][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-26 04:08:33.708][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-26 04:08:33.709][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:33.710][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.713][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:33.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.715][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.717][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.718][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.719][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:33.721][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:33.722][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.723][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.725][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-05-26 04:08:33.727][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.729][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-05-26 04:08:33.730][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.731][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:33.733][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.734][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.735][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.737][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.738][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-26 04:08:33.739][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:33.741][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.742][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-05-26 04:08:33.743][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:33.745][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.746][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.748][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:33.748][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-26 04:08:33.748][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-26 04:08:33.748][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-26 04:08:33.748][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-26 04:08:33.749][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:33.750][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.751][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.753][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:33.754][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.755][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.757][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.758][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.759][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:33.760][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:33.762][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.763][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.765][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-05-26 04:08:33.767][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.769][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-05-26 04:08:33.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:33.773][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.774][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.777][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.778][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-26 04:08:33.779][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:33.781][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.782][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-05-26 04:08:33.783][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:33.785][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.786][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.788][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.797][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:33.799][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.800][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.801][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:33.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.804][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.805][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.806][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.808][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:33.809][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:33.810][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.812][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.813][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-05-26 04:08:33.816][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.817][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-05-26 04:08:33.818][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:33.821][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.822][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.824][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.825][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.827][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-26 04:08:33.828][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:33.829][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.831][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-05-26 04:08:33.832][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:33.834][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.835][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:33.836][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.838][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:33.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.842][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:33.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:33.844][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:33.845][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:33.847][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:33.849][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:33.851][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:33.852][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:33.857][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:33.858][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.878][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[2023-05-26 04:08:33.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.884][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[2023-05-26 04:08:33.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.908][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[2023-05-26 04:08:33.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.956][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[2023-05-26 04:08:33.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:33.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:33.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:33.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:33.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:33.963][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-05-26 04:08:33.969][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-05-26 04:08:33.971][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-05-26 04:08:33.973][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-05-26 04:08:33.975][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-05-26 04:08:33.977][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-26 04:08:33.978][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-05-26 04:08:33.980][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-05-26 04:08:33.982][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-05-26 04:08:33.984][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-26 04:08:33.986][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-26 04:08:33.988][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-05-26 04:08:33.990][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-05-26 04:08:33.992][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-05-26 04:08:33.994][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-05-26 04:08:33.996][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-26 04:08:33.998][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-05-26 04:08:34.000][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-05-26 04:08:34.001][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-05-26 04:08:34.003][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-05-26 04:08:34.005][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-05-26 04:08:34.007][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-05-26 04:08:34.009][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-05-26 04:08:34.011][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-05-26 04:08:34.013][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-05-26 04:08:34.015][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-05-26 04:08:34.017][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-05-26 04:08:34.019][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-05-26 04:08:34.021][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-05-26 04:08:34.023][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-05-26 04:08:34.024][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-05-26 04:08:34.026][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-05-26 04:08:34.036][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-05-26 04:08:34.038][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-05-26 04:08:34.040][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-05-26 04:08:34.042][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-05-26 04:08:34.044][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-05-26 04:08:34.046][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-05-26 04:08:34.048][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-05-26 04:08:34.049][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-05-26 04:08:34.051][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-05-26 04:08:34.053][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-05-26 04:08:34.055][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-05-26 04:08:34.057][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-05-26 04:08:34.059][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-05-26 04:08:34.061][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-05-26 04:08:34.063][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-05-26 04:08:34.065][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-05-26 04:08:34.067][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-05-26 04:08:34.069][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-05-26 04:08:34.071][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-05-26 04:08:34.073][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-05-26 04:08:34.075][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-05-26 04:08:34.076][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-05-26 04:08:34.078][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-05-26 04:08:34.080][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-05-26 04:08:34.082][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-05-26 04:08:34.084][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-05-26 04:08:34.086][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-05-26 04:08:34.088][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-05-26 04:08:34.090][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-05-26 04:08:34.092][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-05-26 04:08:34.094][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-05-26 04:08:34.096][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-05-26 04:08:34.098][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-05-26 04:08:34.100][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-05-26 04:08:34.101][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-05-26 04:08:34.103][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-05-26 04:08:34.105][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-05-26 04:08:34.107][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-05-26 04:08:34.109][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-05-26 04:08:34.111][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-05-26 04:08:34.113][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-05-26 04:08:34.115][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-05-26 04:08:34.117][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-05-26 04:08:34.119][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-05-26 04:08:34.121][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-05-26 04:08:34.123][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-05-26 04:08:34.125][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-05-26 04:08:34.126][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-05-26 04:08:34.128][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-05-26 04:08:34.130][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-05-26 04:08:34.132][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-05-26 04:08:34.140][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-05-26 04:08:34.142][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-05-26 04:08:34.146][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:34.148][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.150][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.174][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[2023-05-26 04:08:34.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.191][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[2023-05-26 04:08:34.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:34.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:34.343][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-05-26 04:08:34.356][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:34.359][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:34.360][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-05-26 04:08:34.361][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:34.363][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:34.364][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:34.365][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-05-26 04:08:34.367][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:34.368][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:34.369][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-05-26 04:08:34.371][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:34.372][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:34.373][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-05-26 04:08:34.375][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-05-26 04:08:34.376][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-05-26 04:08:34.378][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:34.379][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:34.379][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-05-26 04:08:34.379][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-05-26 04:08:34.380][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-05-26 04:08:34.382][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:34.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:34.384][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:34.385][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:34.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:34.388][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:34.389][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-26 04:08:34.389][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-05-26 04:08:34.390][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:34.392][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:34.393][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:34.394][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:34.402][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-05-26 04:08:34.405][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-26 04:08:34.407][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-26 04:08:34.409][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-26 04:08:34.411][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-26 04:08:34.440][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:34.441][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-05-26 04:08:34.446][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:34.451][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:34.456][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:34.457][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:34.459][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-05-26 04:08:34.461][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-05-26 04:08:34.462][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-26 04:08:34.462][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-05-26 04:08:34.463][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:34.465][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:34.466][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-05-26 04:08:34.467][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-05-26 04:08:34.468][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:34.492][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:34.494][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:34.495][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:34.497][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:34.499][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:34.500][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-05-26 04:08:34.519][biodb::testThat]
biodb.INFO [2023-05-26 04:08:34.521][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-05-26 04:08:34.522][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:34.523][biodb::testThat]
biodb.TRACE[2023-05-26 04:08:34.540][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-05-26 04:08:34.546][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:34.551][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:34.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:34.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:34.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:34.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:34.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:34.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:34.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:34.588][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:34.590][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:34.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.593][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:34.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:34.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.620][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:34.622][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:34.623][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.624][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.661][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:34.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:34.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.670][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.672][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.673][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.674][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.676][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.685][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:34.687][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:34.688][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.689][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.691][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:34.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:34.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:34.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:34.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.704][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:34.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:34.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.715][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:34.717][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:34.718][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.719][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:34.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:34.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.730][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:34.732][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:34.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.734][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.736][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:34.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:34.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.755][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:34.756][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:34.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.759][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.761][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:34.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.770][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:34.772][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:34.773][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.774][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:34.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:34.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.785][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:34.787][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:34.788][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.790][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:34.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:34.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.801][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:34.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:34.804][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.805][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:34.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:34.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:34.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:34.819][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.820][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:34.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:34.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.831][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:34.833][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:34.834][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.835][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:34.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:34.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.847][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:34.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:34.849][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.851][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:34.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:34.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.862][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:34.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:34.865][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.866][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:34.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:34.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.877][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:34.879][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:34.880][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.881][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:34.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:34.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:34.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:34.895][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.896][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:34.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.907][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:34.909][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:34.910][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.911][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.913][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:34.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:34.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:34.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:34.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:34.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:34.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.993][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:34.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:34.998][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:34.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.003][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:35.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:35.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.014][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:35.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:35.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:35.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:35.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.061][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:35.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:35.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.066][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:35.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:35.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.071][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:35.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:35.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.076][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:35.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:35.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.087][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.092][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.097][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.102][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.108][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.113][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.118][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.123][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:35.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:35.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:35.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:35.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:35.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.174][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.223][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.229][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.234][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.240][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.245][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.250][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:35.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.261][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:35.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:35.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:35.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:35.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.272][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:35.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.294][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:35.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:35.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.365][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.370][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.381][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:35.423][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-05-26 04:08:35.429][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-26 04:08:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-26 04:08:35.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.435][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-26 04:08:35.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-26 04:08:35.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.440][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-05-26 04:08:35.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-05-26 04:08:35.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.446][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-05-26 04:08:35.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-05-26 04:08:35.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.481][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.535][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.541][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.546][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:35.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.579][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.580][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.582][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.583][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:35.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:35.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.600][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.605][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.617][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.618][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.619][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.621][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.622][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:35.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.654][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.655][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.658][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:35.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.674][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.680][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.685][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.691][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.692][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.694][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.695][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.696][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:35.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.739][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:35.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.756][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.761][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.772][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.774][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.775][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.776][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.778][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:35.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.793][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.809][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.811][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.812][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.813][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:35.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:35.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.830][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.835][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.841][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.846][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.848][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.849][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.850][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.852][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:35.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:35.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.877][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.883][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.885][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.887][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.888][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:35.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:35.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.910][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.915][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.926][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.927][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.930][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.931][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:35.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.963][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.966][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.967][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:35.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.984][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.989][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:35.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:35.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.000][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.001][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.004][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.020][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.026][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.037][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.038][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.039][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.041][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.057][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.063][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.074][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.075][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.076][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.078][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.101][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.117][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.119][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.120][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.121][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.123][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.156][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.157][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.158][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.191][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.193][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.195][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.211][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.217][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.222][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.227][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.229][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.230][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.231][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.248][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:36.249][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:36.251][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.252][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.259][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.261][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.262][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.264][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.271][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.273][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.274][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.275][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:36.291][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:36.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.294][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.301][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:36.303][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:36.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.306][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.313][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.315][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.317][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.325][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.327][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.328][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.329][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.337][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.339][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.340][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.341][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.349][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:36.350][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:36.352][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.353][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.361][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:36.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:36.363][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.365][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.374][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.375][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.376][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.385][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.387][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.388][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.396][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:36.397][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:36.398][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.400][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:36.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:36.410][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.411][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.419][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:36.420][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:36.422][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.423][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.431][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:36.432][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:36.433][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.435][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.442][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:36.444][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:36.445][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.446][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.454][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.455][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.457][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.458][ef$get] fields variable is a list.
biodb.INFO [2023-05-26 04:08:36.466][biodb::testThat]
biodb.INFO [2023-05-26 04:08:36.468][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-05-26 04:08:36.469][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:36.470][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:36.497][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-05-26 04:08:36.506][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2023-05-26 04:08:36.510][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-05-26 04:08:36.512][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-05-26 04:08:36.513][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-05-26 04:08:36.515][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-05-26 04:08:36.517][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-05-26 04:08:36.518][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-05-26 04:08:36.521][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-05-26 04:08:36.523][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-05-26 04:08:36.524][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-05-26 04:08:36.527][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker18c8f14aceebd0marker".
biodb.TRACE[2023-05-26 04:08:36.528][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-05-26 04:08:36.530][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-05-26 04:08:36.531][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-05-26 04:08:36.533][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-05-26 04:08:36.535][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2023-05-26 04:08:36.536][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-05-26 04:08:36.538][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2023-05-26 04:08:36.541][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-05-26 04:08:36.542][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-05-26 04:08:36.543][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-05-26 04:08:36.545][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2023-05-26 04:08:36.553][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/entry_1.xml, /home/biocbuild/.cache/R/biodb/tmp/entry_2.xml".
biodb.TRACE[2023-05-26 04:08:36.555][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-05-26 04:08:36.556][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-05-26 04:08:36.558][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-05-26 04:08:36.560][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker18c8f112e5e850marker".
biodb.TRACE[2023-05-26 04:08:36.562][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-05-26 04:08:36.563][self$addFilesToCache] Done adding files.
biodb.TRACE[2023-05-26 04:08:36.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-05-26 04:08:36.567][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-26 04:08:36.569][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-05-26 04:08:36.571][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-26 04:08:36.628][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:36.630][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:36.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:36.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:36.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:36.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:36.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:36.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:36.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:36.651][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:36.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:36.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.655][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:36.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:36.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.665][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:36.675][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:36.677][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.678][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.680][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:36.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.689][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.691][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.692][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.693][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.695][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.704][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.706][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.707][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.709][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.711][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.720][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:36.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:36.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.724][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:36.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.735][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:36.736][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:36.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.739][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:36.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:36.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.750][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:36.751][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:36.753][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.754][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.756][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:36.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:36.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.765][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:36.767][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:36.768][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.769][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.771][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:36.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:36.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.780][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.782][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.783][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.784][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.786][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:36.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.795][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.797][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.798][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.799][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.801][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.810][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:36.812][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:36.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.814][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.816][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:36.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:36.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.825][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.828][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.829][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:36.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:36.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.840][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.842][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.843][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.844][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:36.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.855][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:36.857][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:36.858][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.860][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:36.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:36.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.878][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:36.879][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:36.881][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.882][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:36.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:36.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.893][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:36.898][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:36.900][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.902][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.904][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:36.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:36.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.916][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.917][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.919][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.920][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.923][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:36.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:36.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.933][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:36.934][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.936][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.937][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.939][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:36.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:36.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:36.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:36.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:36.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:36.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:36.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:36.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.968][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.980][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:36.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.986][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:36.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:36.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:37.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:37.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:37.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:37.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:37.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:37.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:37.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:37.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:37.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:37.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:37.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:37.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:37.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.047][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:37.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:37.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.053][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:37.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:37.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.059][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:37.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.064][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:37.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:37.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.095][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.101][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:37.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:37.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.107][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.113][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:37.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:37.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:37.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:37.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:37.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:37.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:37.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:37.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:37.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:37.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.176][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:37.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:37.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.182][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:37.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:37.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.188][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:37.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:37.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:37.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:37.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:37.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.227][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:37.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:37.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:37.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:37.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.239][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:37.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:37.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.244][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.250][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.256][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.262][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:37.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:37.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:37.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:37.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:37.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:37.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.286][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:37.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.309][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:37.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.352][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:37.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:37.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.358][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:37.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:37.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.369][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:37.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:37.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:37.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:37.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.413][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-05-26 04:08:37.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-05-26 04:08:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-05-26 04:08:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-05-26 04:08:37.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-05-26 04:08:37.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-05-26 04:08:37.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-05-26 04:08:37.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-05-26 04:08:37.440][biodb::testThat]
biodb.INFO [2023-05-26 04:08:37.441][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-05-26 04:08:37.442][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:37.444][biodb::testThat]
biodb.TRACE[2023-05-26 04:08:37.447][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.449][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.452][ef$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.453][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-05-26 04:08:37.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.519][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-05-26 04:08:37.531][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-05-26 04:08:37.532][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-26 04:08:37.534][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-26 04:08:37.536][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.538][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.540][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:37.542][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.543][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:37.548][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:37.550][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:37.551][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:37.553][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:37.554][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:37.555][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-26 04:08:37.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:37.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:37.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.580][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:37.581][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:37.583][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-05-26 04:08:37.602][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.604][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.605][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.606][ef$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.608][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-05-26 04:08:37.627][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.633][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.646][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.654][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2023-05-26 04:08:37.740][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-26 04:08:37.741][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-05-26 04:08:37.743][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-05-26 04:08:37.762][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.764][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.766][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:37.768][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.769][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:37.802][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:37.803][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:37.805][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:37.806][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:37.807][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:37.809][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-26 04:08:37.811][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.816][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.822][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.827][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:37.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:37.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.833][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:37.834][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:37.835][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-05-26 04:08:37.854][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.856][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.857][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.858][ef$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.860][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2023-05-26 04:08:37.880][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.885][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.890][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.898][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2023-05-26 04:08:37.910][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2023-05-26 04:08:37.911][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2023-05-26 04:08:37.912][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2023-05-26 04:08:37.915][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.916][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.918][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:37.920][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:37.922][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:37.927][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:37.928][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:37.930][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:37.931][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:37.932][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:37.934][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-26 04:08:37.936][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.942][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.947][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:37.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:37.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:37.958][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:37.959][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:37.960][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-05-26 04:08:37.988][biodb::testThat]
biodb.INFO [2023-05-26 04:08:37.989][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-05-26 04:08:37.991][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:37.992][biodb::testThat]
biodb.TRACE[2023-05-26 04:08:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:38.054][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-05-26 04:08:38.055][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-26 04:08:38.057][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-05-26 04:08:38.059][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:38.061][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:38.063][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:38.064][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:38.066][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:38.071][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:38.072][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:38.074][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:38.075][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:38.076][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:38.078][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-26 04:08:38.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:38.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:38.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:38.102][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:38.103][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-05-26 04:08:38.123][biodb::testThat]
biodb.INFO [2023-05-26 04:08:38.125][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-05-26 04:08:38.126][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:38.127][biodb::testThat]
biodb.TRACE[2023-05-26 04:08:38.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.175][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.181][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-05-26 04:08:38.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-05-26 04:08:38.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.186][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-05-26 04:08:38.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-05-26 04:08:38.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.253][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.259][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-05-26 04:08:38.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.264][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-05-26 04:08:38.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-05-26 04:08:38.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:38.269][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-05-26 04:08:38.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-05-26 04:08:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-05-26 04:08:38.278][biodb::testThat]
biodb.INFO [2023-05-26 04:08:38.280][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-05-26 04:08:38.281][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:38.282][biodb::testThat]
biodb.INFO [2023-05-26 04:08:38.288][biodb::testThat]
biodb.INFO [2023-05-26 04:08:38.290][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-05-26 04:08:38.291][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:38.292][biodb::testThat]
biodb.INFO [2023-05-26 04:08:38.298][biodb::testThat]
biodb.INFO [2023-05-26 04:08:38.300][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-05-26 04:08:38.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:38.302][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:38.306][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-05-26 04:08:40.459][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-05-26 04:08:40.935][biodb::testThat]
biodb.INFO [2023-05-26 04:08:40.937][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-05-26 04:08:40.938][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:40.940][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:42.424][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-05-26 04:08:42.913][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:42.915][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:42.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:42.917][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:42.919][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:42.920][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:42.921][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:42.923][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:42.924][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:42.925][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:42.927][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:42.928][ef$get] fields variable is a list.
biodb.INFO [2023-05-26 04:08:42.930][biodb::testThat]
biodb.INFO [2023-05-26 04:08:42.931][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-05-26 04:08:42.933][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:42.934][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:42.937][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-05-26 04:08:43.001][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-26 04:08:43.004][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.006][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-26 04:08:43.039][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-05-26 04:08:43.041][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-05-26 04:08:43.042][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-05-26 04:08:43.044][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-26 04:08:43.046][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.068][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:43.070][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:43.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:43.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:43.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:43.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:43.088][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.094][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:43.132][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-05-26 04:08:43.133][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-05-26 04:08:43.154][biodb::testThat]
biodb.INFO [2023-05-26 04:08:43.155][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-05-26 04:08:43.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:43.166][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:43.176][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-05-26 04:08:43.178][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-05-26 04:08:43.179][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-26 04:08:43.181][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.183][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-26 04:08:43.186][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-05-26 04:08:43.187][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-05-26 04:08:43.189][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-05-26 04:08:43.190][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-26 04:08:43.192][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.216][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:43.218][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:43.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:43.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:43.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:43.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:43.237][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.242][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:43.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:43.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:43.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:43.280][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-05-26 04:08:43.282][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-05-26 04:08:43.283][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-05-26 04:08:43.298][biodb::testThat]
biodb.INFO [2023-05-26 04:08:43.300][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-05-26 04:08:43.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:43.302][biodb::testThat]
biodb.INFO [2023-05-26 04:08:43.337][biodb::testThat]
biodb.INFO [2023-05-26 04:08:43.339][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-05-26 04:08:43.340][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:43.341][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:43.345][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.347][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.349][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:43.350][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.352][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:43.357][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:43.359][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:43.360][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:43.361][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-05-26 04:08:43.370][biodb::testThat]
biodb.INFO [2023-05-26 04:08:43.371][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-05-26 04:08:43.373][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:43.374][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:43.377][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.379][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.381][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:43.383][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:43.384][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:43.390][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:43.391][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:43.392][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:43.394][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-05-26 04:08:43.409][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:43.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:43.412][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.414][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.415][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:43.416][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:43.418][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.419][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:43.420][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:43.421][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:43.423][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:43.424][ef$get] fields variable is a list.
biodb.INFO [2023-05-26 04:08:43.425][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-05-26 04:08:43.427][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-05-26 04:08:43.438][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-05-26 04:08:43.439][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-05-26 04:08:43.440][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:43.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:43.443][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.445][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-05-26 04:08:43.459][biodb::testContext]
biodb.INFO [2023-05-26 04:08:43.461][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:43.462][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-05-26 04:08:43.463][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:43.465][biodb::testContext]
biodb.INFO [2023-05-26 04:08:43.473][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-05-26 04:08:43.475][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-05-26 04:08:43.480][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:43.481][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-05-26 04:08:43.483][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-05-26 04:08:43.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.488][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-05-26 04:08:43.489][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-05-26 04:08:43.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.494][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-05-26 04:08:43.496][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-05-26 04:08:43.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.501][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-05-26 04:08:43.502][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-05-26 04:08:43.503][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-05-26 04:08:43.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.508][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-05-26 04:08:43.510][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-05-26 04:08:43.511][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-05-26 04:08:43.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.516][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-05-26 04:08:43.518][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-05-26 04:08:43.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.523][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-05-26 04:08:43.524][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-05-26 04:08:43.525][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-05-26 04:08:43.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.530][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-05-26 04:08:43.532][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-05-26 04:08:43.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.536][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[2023-05-26 04:08:43.537][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-05-26 04:08:43.538][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-05-26 04:08:43.540][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-05-26 04:08:43.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.545][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-05-26 04:08:43.546][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-05-26 04:08:43.547][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-05-26 04:08:43.549][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-05-26 04:08:43.550][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-05-26 04:08:43.552][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-05-26 04:08:43.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.555][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[2023-05-26 04:08:43.557][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-05-26 04:08:43.558][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-05-26 04:08:43.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.563][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-05-26 04:08:43.565][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-05-26 04:08:43.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.570][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-05-26 04:08:43.571][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-05-26 04:08:43.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.576][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-05-26 04:08:43.578][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-05-26 04:08:43.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.583][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-05-26 04:08:43.584][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-05-26 04:08:43.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.589][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-05-26 04:08:43.590][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-05-26 04:08:43.595][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-05-26 04:08:43.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.600][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-05-26 04:08:43.602][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-05-26 04:08:43.603][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-05-26 04:08:43.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.616][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-05-26 04:08:43.619][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.642][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-05-26 04:08:43.643][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.645][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:43.646][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.647][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.649][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.650][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.651][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-26 04:08:43.653][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:43.654][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.655][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-05-26 04:08:43.657][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:43.658][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.659][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.661][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:43.661][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-26 04:08:43.661][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-26 04:08:43.661][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-26 04:08:43.661][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-26 04:08:43.662][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:43.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.664][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.666][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:43.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.669][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.671][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.672][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:43.673][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:43.675][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.676][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.677][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-05-26 04:08:43.680][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.681][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-05-26 04:08:43.683][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.684][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:43.685][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.687][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.688][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.689][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.691][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-26 04:08:43.692][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:43.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.695][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-05-26 04:08:43.696][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:43.697][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.699][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.700][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:43.700][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-26 04:08:43.700][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-26 04:08:43.700][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-26 04:08:43.700][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-26 04:08:43.701][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:43.703][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.704][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.705][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:43.706][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.709][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.710][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.711][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:43.712][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:43.714][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.715][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.717][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-05-26 04:08:43.719][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.720][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-05-26 04:08:43.722][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.723][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:43.724][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.726][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.727][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.728][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.730][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-26 04:08:43.731][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:43.732][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.734][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-05-26 04:08:43.735][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:43.736][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.738][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.739][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.740][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:43.742][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.750][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.752][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:43.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.756][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.757][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.759][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:43.760][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:43.761][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.762][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.764][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-05-26 04:08:43.767][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.768][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-05-26 04:08:43.769][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:43.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.776][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.778][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-26 04:08:43.779][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:43.780][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.782][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-05-26 04:08:43.783][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:43.784][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.786][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:43.787][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.788][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:43.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.791][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.792][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:43.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:43.795][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:43.796][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:43.798][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.799][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:43.800][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:43.801][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:43.803][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:43.805][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:43.806][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.825][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[2023-05-26 04:08:43.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.837][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[2023-05-26 04:08:43.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.868][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[2023-05-26 04:08:43.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:43.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:43.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:43.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:43.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:43.937][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-05-26 04:08:43.940][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-05-26 04:08:43.942][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-05-26 04:08:43.944][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-05-26 04:08:43.946][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-05-26 04:08:43.948][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-26 04:08:43.950][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-05-26 04:08:43.952][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-05-26 04:08:43.954][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-05-26 04:08:43.956][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-26 04:08:43.958][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-26 04:08:43.960][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-05-26 04:08:43.962][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-05-26 04:08:43.964][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-05-26 04:08:43.966][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-05-26 04:08:43.968][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-26 04:08:43.970][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-05-26 04:08:43.972][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-05-26 04:08:43.974][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-05-26 04:08:43.976][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-05-26 04:08:43.978][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-05-26 04:08:43.980][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-05-26 04:08:43.982][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-05-26 04:08:43.984][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-05-26 04:08:43.986][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-05-26 04:08:43.988][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-05-26 04:08:43.990][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-05-26 04:08:43.992][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-05-26 04:08:43.994][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-05-26 04:08:43.996][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-05-26 04:08:43.998][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-05-26 04:08:44.000][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-05-26 04:08:44.002][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-05-26 04:08:44.004][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-05-26 04:08:44.006][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-05-26 04:08:44.008][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-05-26 04:08:44.010][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-05-26 04:08:44.012][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-05-26 04:08:44.014][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-05-26 04:08:44.016][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-05-26 04:08:44.018][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-05-26 04:08:44.020][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-05-26 04:08:44.022][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-05-26 04:08:44.024][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-05-26 04:08:44.026][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-05-26 04:08:44.028][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-05-26 04:08:44.030][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-05-26 04:08:44.031][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-05-26 04:08:44.033][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-05-26 04:08:44.035][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-05-26 04:08:44.037][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-05-26 04:08:44.039][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-05-26 04:08:44.041][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-05-26 04:08:44.043][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-05-26 04:08:44.045][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-05-26 04:08:44.047][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-05-26 04:08:44.049][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-05-26 04:08:44.059][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-05-26 04:08:44.061][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-05-26 04:08:44.063][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-05-26 04:08:44.065][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-05-26 04:08:44.067][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-05-26 04:08:44.069][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-05-26 04:08:44.071][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-05-26 04:08:44.073][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-05-26 04:08:44.075][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-05-26 04:08:44.077][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-05-26 04:08:44.078][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-05-26 04:08:44.080][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-05-26 04:08:44.082][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-05-26 04:08:44.084][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-05-26 04:08:44.086][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-05-26 04:08:44.088][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-05-26 04:08:44.090][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-05-26 04:08:44.092][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-05-26 04:08:44.094][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-05-26 04:08:44.096][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-05-26 04:08:44.098][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-05-26 04:08:44.100][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-05-26 04:08:44.102][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-05-26 04:08:44.104][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-05-26 04:08:44.106][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-05-26 04:08:44.107][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-05-26 04:08:44.109][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-05-26 04:08:44.112][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-05-26 04:08:44.113][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:44.114][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.117][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.185][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[2023-05-26 04:08:44.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.219][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[2023-05-26 04:08:44.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:44.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:44.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.270][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[2023-05-26 04:08:44.272][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-05-26 04:08:44.274][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:44.277][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:44.278][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-05-26 04:08:44.280][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:44.281][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:44.282][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:44.284][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-05-26 04:08:44.285][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:44.286][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:44.288][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-05-26 04:08:44.289][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:44.290][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:44.292][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-05-26 04:08:44.293][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-05-26 04:08:44.294][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-05-26 04:08:44.296][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:44.297][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:44.297][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-05-26 04:08:44.297][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-05-26 04:08:44.299][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-05-26 04:08:44.300][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:44.301][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:44.303][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:44.304][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:44.305][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:44.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:44.308][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-26 04:08:44.308][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-05-26 04:08:44.309][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:44.310][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:44.312][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:44.313][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:44.315][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-05-26 04:08:44.317][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-26 04:08:44.319][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-26 04:08:44.321][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-26 04:08:44.323][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-26 04:08:44.328][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:44.329][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-05-26 04:08:44.331][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:44.333][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:44.342][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:44.344][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:44.346][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-05-26 04:08:44.347][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-05-26 04:08:44.349][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-26 04:08:44.349][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-05-26 04:08:44.350][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:44.351][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:44.352][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-05-26 04:08:44.354][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-05-26 04:08:44.355][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:44.357][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:44.359][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:44.360][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:44.362][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:44.364][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:44.365][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-05-26 04:08:44.367][biodb::testThat]
biodb.INFO [2023-05-26 04:08:44.368][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-05-26 04:08:44.370][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:44.371][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:44.377][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:44.378][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:44.380][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:44.382][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:44.384][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:44.389][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:44.391][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:44.392][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:44.394][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:44.397][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-05-26 04:08:44.400][biodb::testThat]
biodb.INFO [2023-05-26 04:08:44.401][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-05-26 04:08:44.403][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:44.404][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:44.407][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-05-26 04:08:44.408][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-26 04:08:44.411][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:44.413][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-26 04:08:44.415][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-05-26 04:08:44.417][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-26 04:08:44.419][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-05-26 04:08:44.421][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-26 04:08:44.443][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:44.445][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:44.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:44.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:44.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:44.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:44.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:44.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:44.461][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.TRACE[2023-05-26 04:08:44.466][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:44.467][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:44.469][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.470][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:44.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:44.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.481][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:44.482][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:44.484][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.485][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.495][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:44.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:44.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.504][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.506][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.507][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.508][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.510][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.520][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.521][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.522][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.524][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.526][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.538][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.539][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.550][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.552][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.555][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.566][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.567][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.569][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.570][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.572][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.581][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:44.583][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:44.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.585][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.587][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:44.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.596][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.598][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.599][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.601][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.602][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.612][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.613][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.615][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.616][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.618][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.627][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:44.629][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:44.630][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.631][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.633][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:44.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:44.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:44.652][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:44.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.654][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:44.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:44.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.668][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.670][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.681][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.683][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.685][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.696][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:44.698][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:44.699][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.700][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.702][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:44.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:44.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.711][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:44.713][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:44.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.715][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.717][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:44.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:44.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.726][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:44.728][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:44.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.731][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.732][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:44.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:44.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.742][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:44.743][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.745][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.746][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.748][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:44.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:44.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:44.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:44.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:44.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:44.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:44.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.774][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.779][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.785][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.798][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.804][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.809][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:44.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:44.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.849][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.854][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.860][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:44.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.866][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.871][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:44.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.882][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.888][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:44.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.899][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:44.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:44.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.905][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:44.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:44.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.910][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:44.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:44.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:44.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:44.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:44.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:44.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:44.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:44.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:44.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:44.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:44.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:44.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:44.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:44.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:44.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.974][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.980][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.986][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:44.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:44.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:44.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:44.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:45.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:45.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:45.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.025][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:45.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:45.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.031][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:45.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:45.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.037][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:45.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:45.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.042][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:45.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:45.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.048][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:45.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:45.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.054][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:45.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:45.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:45.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:45.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:45.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:45.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:45.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:45.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.076][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:45.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.106][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:45.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:45.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:45.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:45.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.149][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:45.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:45.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.155][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:45.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:45.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.166][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:45.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:45.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:45.209][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-05-26 04:08:45.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:45.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-05-26 04:08:45.231][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-05-26 04:08:45.240][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-05-26 04:08:45.241][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-05-26 04:08:45.243][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-05-26 04:08:45.244][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.246][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.249][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-05-26 04:08:45.255][biodb::testContext]
biodb.INFO [2023-05-26 04:08:45.257][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:45.258][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-05-26 04:08:45.259][biodb::testContext] ********************************************************************************
biodb.INFO [2023-05-26 04:08:45.261][biodb::testContext]
biodb.INFO [2023-05-26 04:08:45.269][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-05-26 04:08:45.271][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-05-26 04:08:45.276][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:45.277][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-05-26 04:08:45.279][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-05-26 04:08:45.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.284][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-05-26 04:08:45.285][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-05-26 04:08:45.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.290][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-05-26 04:08:45.292][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-05-26 04:08:45.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.297][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-05-26 04:08:45.298][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-05-26 04:08:45.300][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-05-26 04:08:45.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.305][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-05-26 04:08:45.306][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-05-26 04:08:45.308][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-05-26 04:08:45.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.313][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-05-26 04:08:45.314][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-05-26 04:08:45.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.319][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-05-26 04:08:45.321][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-05-26 04:08:45.322][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-05-26 04:08:45.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.327][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-05-26 04:08:45.329][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-05-26 04:08:45.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.334][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-05-26 04:08:45.335][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-05-26 04:08:45.337][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-05-26 04:08:45.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.340][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[2023-05-26 04:08:45.342][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-05-26 04:08:45.343][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-05-26 04:08:45.345][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-05-26 04:08:45.346][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-05-26 04:08:45.347][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-05-26 04:08:45.349][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-05-26 04:08:45.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.354][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-05-26 04:08:45.356][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-05-26 04:08:45.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.361][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-05-26 04:08:45.362][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-05-26 04:08:45.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.367][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-05-26 04:08:45.369][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-05-26 04:08:45.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.374][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-05-26 04:08:45.375][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-05-26 04:08:45.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.388][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-05-26 04:08:45.390][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-05-26 04:08:45.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.394][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[2023-05-26 04:08:45.395][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-05-26 04:08:45.396][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-05-26 04:08:45.401][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-05-26 04:08:45.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.406][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-05-26 04:08:45.408][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-05-26 04:08:45.409][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-05-26 04:08:45.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.413][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[2023-05-26 04:08:45.415][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-05-26 04:08:45.417][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.419][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-05-26 04:08:45.420][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.421][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:45.423][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.424][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.426][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.427][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.428][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-26 04:08:45.430][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:45.431][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.433][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-05-26 04:08:45.434][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:45.435][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.437][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.438][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:45.438][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-26 04:08:45.438][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-26 04:08:45.438][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-26 04:08:45.438][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-26 04:08:45.440][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:45.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.444][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:45.445][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.446][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.448][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.449][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:45.452][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:45.453][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.455][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.456][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-05-26 04:08:45.459][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.460][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-05-26 04:08:45.462][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.463][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:45.464][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.466][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.467][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.470][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-26 04:08:45.471][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:45.473][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.474][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-05-26 04:08:45.476][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:45.477][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.478][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.480][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:45.480][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-05-26 04:08:45.480][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-05-26 04:08:45.480][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-05-26 04:08:45.480][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-05-26 04:08:45.481][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:45.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:45.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.491][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:45.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:45.495][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.496][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.498][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-05-26 04:08:45.500][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.502][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-05-26 04:08:45.503][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.504][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:45.506][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.507][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.509][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.510][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.511][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-05-26 04:08:45.513][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:45.514][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.516][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-05-26 04:08:45.517][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:45.518][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.520][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.521][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.523][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:45.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.534][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:45.536][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.537][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.538][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.540][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:45.542][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:45.544][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.545][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.547][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-05-26 04:08:45.549][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.551][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-05-26 04:08:45.552][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:45.555][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.556][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.558][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.559][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-05-26 04:08:45.562][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:45.564][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.565][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-05-26 04:08:45.566][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:45.568][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.569][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:45.571][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.572][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-05-26 04:08:45.573][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.575][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.576][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:45.577][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:45.579][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:45.580][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:45.582][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.583][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:45.584][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:45.586][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:45.587][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:45.589][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:45.590][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.591][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.DEBUG[2023-05-26 04:08:45.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.661][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[2023-05-26 04:08:45.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.709][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-05-26 04:08:45.711][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-05-26 04:08:45.713][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-05-26 04:08:45.715][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-05-26 04:08:45.717][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-05-26 04:08:45.719][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-26 04:08:45.721][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-05-26 04:08:45.723][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-05-26 04:08:45.725][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-05-26 04:08:45.727][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-26 04:08:45.729][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-26 04:08:45.731][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-05-26 04:08:45.733][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-05-26 04:08:45.735][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-05-26 04:08:45.737][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-05-26 04:08:45.739][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-26 04:08:45.741][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-05-26 04:08:45.743][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-05-26 04:08:45.745][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-05-26 04:08:45.747][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-05-26 04:08:45.749][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-05-26 04:08:45.751][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-05-26 04:08:45.753][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-05-26 04:08:45.755][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-05-26 04:08:45.756][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-05-26 04:08:45.758][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-05-26 04:08:45.760][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-05-26 04:08:45.762][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-05-26 04:08:45.764][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-05-26 04:08:45.766][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-05-26 04:08:45.768][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-05-26 04:08:45.770][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-05-26 04:08:45.772][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-05-26 04:08:45.774][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-05-26 04:08:45.776][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-05-26 04:08:45.778][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-05-26 04:08:45.780][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-05-26 04:08:45.782][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-05-26 04:08:45.784][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-05-26 04:08:45.786][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-05-26 04:08:45.788][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-05-26 04:08:45.790][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-05-26 04:08:45.792][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-05-26 04:08:45.794][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-05-26 04:08:45.796][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-05-26 04:08:45.798][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-05-26 04:08:45.800][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-05-26 04:08:45.802][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-05-26 04:08:45.804][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-05-26 04:08:45.806][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-05-26 04:08:45.808][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-05-26 04:08:45.834][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-05-26 04:08:45.836][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-05-26 04:08:45.838][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-05-26 04:08:45.841][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-05-26 04:08:45.843][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-05-26 04:08:45.845][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-05-26 04:08:45.846][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-05-26 04:08:45.848][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-05-26 04:08:45.850][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-05-26 04:08:45.852][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-05-26 04:08:45.854][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-05-26 04:08:45.856][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-05-26 04:08:45.858][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-05-26 04:08:45.860][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-05-26 04:08:45.862][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-05-26 04:08:45.864][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-05-26 04:08:45.866][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-05-26 04:08:45.868][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-05-26 04:08:45.870][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-05-26 04:08:45.872][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-05-26 04:08:45.874][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-05-26 04:08:45.876][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-05-26 04:08:45.878][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-05-26 04:08:45.880][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-05-26 04:08:45.881][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-05-26 04:08:45.883][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-05-26 04:08:45.885][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-05-26 04:08:45.887][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-05-26 04:08:45.889][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-05-26 04:08:45.891][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-05-26 04:08:45.893][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-05-26 04:08:45.895][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-05-26 04:08:45.897][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-05-26 04:08:45.899][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-05-26 04:08:45.900][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-05-26 04:08:45.902][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.904][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.922][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[2023-05-26 04:08:45.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.939][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[2023-05-26 04:08:45.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.947][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[2023-05-26 04:08:45.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.956][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[2023-05-26 04:08:45.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:45.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:45.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:45.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:45.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:45.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:45.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:45.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.052][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[2023-05-26 04:08:46.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-05-26 04:08:46.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:46.062][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-05-26 04:08:46.064][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:46.067][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:46.068][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-05-26 04:08:46.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:46.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-05-26 04:08:46.073][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:46.074][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-05-26 04:08:46.075][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:46.077][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-05-26 04:08:46.078][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-05-26 04:08:46.080][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-05-26 04:08:46.081][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:46.082][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-05-26 04:08:46.084][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-05-26 04:08:46.085][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-05-26 04:08:46.087][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-05-26 04:08:46.088][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-05-26 04:08:46.088][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-05-26 04:08:46.088][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-05-26 04:08:46.089][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-05-26 04:08:46.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:46.092][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:46.093][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-05-26 04:08:46.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-05-26 04:08:46.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-05-26 04:08:46.097][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-05-26 04:08:46.099][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-26 04:08:46.099][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-05-26 04:08:46.100][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:46.101][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:46.103][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-05-26 04:08:46.104][self$setPropertyValue]
biodb.DEBUG[2023-05-26 04:08:46.106][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-05-26 04:08:46.108][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-05-26 04:08:46.110][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-05-26 04:08:46.112][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-05-26 04:08:46.114][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-05-26 04:08:46.127][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:46.129][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-05-26 04:08:46.130][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:46.132][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:46.134][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:46.135][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:46.137][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-05-26 04:08:46.139][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-05-26 04:08:46.140][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-05-26 04:08:46.140][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-05-26 04:08:46.141][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-05-26 04:08:46.143][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-05-26 04:08:46.144][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-05-26 04:08:46.145][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-05-26 04:08:46.147][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-05-26 04:08:46.149][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:46.150][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:46.152][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:46.154][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.3.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-05-26 04:08:46.155][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-05-26 04:08:46.157][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-05-26 04:08:46.159][biodb::testThat]
biodb.INFO [2023-05-26 04:08:46.160][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-05-26 04:08:46.161][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-05-26 04:08:46.163][biodb::testThat]
biodb.DEBUG[2023-05-26 04:08:46.176][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-26 04:08:46.178][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-05-26 04:08:46.179][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-05-26 04:08:46.183][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:46.185][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:46.187][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:46.189][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:46.190][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:46.195][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:46.197][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:46.198][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:46.200][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:46.201][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:46.202][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-05-26 04:08:46.205][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-05-26 04:08:46.206][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-26 04:08:46.208][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:46.210][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-26 04:08:46.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-05-26 04:08:46.215][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-26 04:08:46.217][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-05-26 04:08:46.219][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-26 04:08:46.241][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:46.243][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:46.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:46.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:46.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:46.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:46.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:46.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:46.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:46.264][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.266][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.267][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.277][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.289][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.290][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.293][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.295][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.304][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.306][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.307][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.308][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.311][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.320][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.321][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.323][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.324][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.326][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.340][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.351][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.352][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.355][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.366][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.369][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.371][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.382][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.383][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.385][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.386][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.388][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.397][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.399][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.400][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.401][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.412][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.414][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.415][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.417][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.436][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:46.438][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:46.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.441][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.442][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:46.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:46.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.452][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:46.453][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:46.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.456][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:46.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:46.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.467][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.469][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.470][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.472][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.483][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.484][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.486][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.487][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.498][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.500][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.501][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.503][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.514][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:46.515][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:46.516][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.518][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.519][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.529][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:46.530][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:46.532][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.533][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.544][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:46.546][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.547][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.549][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.551][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:46.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.577][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.591][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.597][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:46.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.614][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:46.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:46.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:46.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.659][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.670][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:46.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.687][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.692][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.698][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:46.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:46.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.709][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:46.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:46.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:46.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:46.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.725][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:46.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:46.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:46.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:46.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:46.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:46.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:46.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:46.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:46.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.834][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.840][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:46.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.846][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.851][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:46.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:46.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.868][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:46.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:46.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:46.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.887][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:46.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.910][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:46.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:46.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:46.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:46.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.953][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:46.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:46.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.959][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:46.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:46.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:46.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:46.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:46.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:46.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:47.013][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-05-26 04:08:47.015][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:47.046][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:47.047][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:47.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:47.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:47.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:47.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:47.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:47.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:47.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:47.064][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-05-26 04:08:47.066][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-05-26 04:08:47.068][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:47.070][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-05-26 04:08:47.073][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-05-26 04:08:47.074][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-05-26 04:08:47.076][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-05-26 04:08:47.078][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-05-26 04:08:47.100][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-05-26 04:08:47.102][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-05-26 04:08:47.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:47.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:47.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:47.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:47.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:47.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:47.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:47.122][ef$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.124][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.125][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.126][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.137][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.139][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.140][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.142][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.143][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.153][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.154][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.155][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.157][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.159][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.168][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.169][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.171][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.172][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.181][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.195][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.196][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.208][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.209][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.212][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.225][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.227][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.229][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.243][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.246][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.247][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.249][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.251][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.261][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.263][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.266][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.278][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.280][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.281][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.283][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.295][ef$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:47.296][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:47.298][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.299][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:47.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:47.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.311][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:47.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:47.314][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.315][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:47.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:47.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.327][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.329][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.330][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.332][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.358][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.360][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.362][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.364][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.375][ef$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.377][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.378][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.380][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.391][ef$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.393][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.394][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.396][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.397][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.407][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:47.409][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:47.410][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.411][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:47.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:47.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.422][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:47.424][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.425][ef$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.427][ef$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.428][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-05-26 04:08:47.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.455][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.460][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.466][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-05-26 04:08:47.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.471][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.477][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.483][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-05-26 04:08:47.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-05-26 04:08:47.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-05-26 04:08:47.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.530][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.536][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-05-26 04:08:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.547][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.553][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.559][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-05-26 04:08:47.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.564][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.570][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.575][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-05-26 04:08:47.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.586][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.592][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:47.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:47.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:47.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-05-26 04:08:47.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-05-26 04:08:47.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:47.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:47.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-05-26 04:08:47.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-05-26 04:08:47.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.662][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.668][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-05-26 04:08:47.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-05-26 04:08:47.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.707][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.712][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-05-26 04:08:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.724][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.729][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.735][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-05-26 04:08:47.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:47.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:47.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:47.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:47.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.751][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-05-26 04:08:47.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-05-26 04:08:47.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.779][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-05-26 04:08:47.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-05-26 04:08:47.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.805][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-05-26 04:08:47.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-05-26 04:08:47.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.832][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:47.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:47.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:47.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-05-26 04:08:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-05-26 04:08:47.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-05-26 04:08:47.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:47.893][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-05-26 04:08:47.894][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.900][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.905][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.911][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:47.916][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:47.918][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:47.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:47.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:47.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:47.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:47.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:47.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:47.934][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[2023-05-26 04:08:47.957][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-26 04:08:47.959][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-05-26 04:08:47.960][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-05-26 04:08:47.962][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:47.964][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:47.966][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:47.968][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:47.970][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:47.975][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:47.976][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:47.978][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:47.979][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:47.981][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:47.982][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-26 04:08:47.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:47.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:47.996][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:47.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:47.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.001][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.007][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.012][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.018][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:48.023][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:48.025][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:48.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:48.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:48.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:48.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:48.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:48.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:48.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-05-26 04:08:48.042][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.053][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.058][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.064][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.069][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.075][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:48.080][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-05-26 04:08:48.081][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:48.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:48.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:48.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:48.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:48.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:48.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:48.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-05-26 04:08:48.120][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-05-26 04:08:48.122][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-05-26 04:08:48.123][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-05-26 04:08:48.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:48.127][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:48.129][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-05-26 04:08:48.131][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-05-26 04:08:48.132][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-05-26 04:08:48.138][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-05-26 04:08:48.139][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-05-26 04:08:48.141][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-05-26 04:08:48.142][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-05-26 04:08:48.143][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-05-26 04:08:48.145][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-05-26 04:08:48.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.153][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.158][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.164][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.169][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.175][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.180][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:48.186][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-05-26 04:08:48.187][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-05-26 04:08:48.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:48.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:48.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:48.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:48.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:48.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:48.202][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.TRACE[2023-05-26 04:08:48.204][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.215][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.221][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.226][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-05-26 04:08:48.246][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-05-26 04:08:48.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-05-26 04:08:48.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-05-26 04:08:48.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-05-26 04:08:48.252][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-05-26 04:08:48.253][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-05-26 04:08:48.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-05-26 04:08:48.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:48.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:48.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:48.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:48.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:48.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-05-26 04:08:48.274][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-05-26 04:08:48.275][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-05-26 04:08:48.277][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-05-26 04:08:48.278][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-05-26 04:08:48.279][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-05-26 04:08:48.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-05-26 04:08:48.282][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-05-26 04:08:48.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-05-26 04:08:48.284][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-05-26 04:08:48.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 199 ]
>
> proc.time()
user system elapsed
12.750 0.382 17.477
biodbHmdb.Rcheck/biodbHmdb-Ex.timings
| name | user | system | elapsed | |
| HmdbMetabolitesConn | 0.755 | 0.076 | 0.835 | |
| HmdbMetabolitesEntry | 0.162 | 0.001 | 0.163 | |