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This page was generated on 2025-08-26 12:07 -0400 (Tue, 26 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4821
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4610
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4553
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4539
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 205/2319HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodb 1.17.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-25 13:45 -0400 (Mon, 25 Aug 2025)
git_url: https://git.bioconductor.org/packages/biodb
git_branch: devel
git_last_commit: 0068e7c
git_last_commit_date: 2025-06-12 10:16:32 -0400 (Thu, 12 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    TIMEOUT  

CHECK results for biodb on taishan

To the developers/maintainers of the biodb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodb.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: biodb
Version: 1.17.1
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodb_1.17.1.tar.gz
StartedAt: 2025-08-26 05:00:55 -0000 (Tue, 26 Aug 2025)
EndedAt: 2025-08-26 06:07:43 -0000 (Tue, 26 Aug 2025)
EllapsedTime: 4007.7 seconds
RetCode: None
Status:   TIMEOUT  
CheckDir: biodb.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:biodb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodb_1.17.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodb/DESCRIPTION’ ... OK
* this is package ‘biodb’ version ‘1.17.1’
* 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 ‘biodb’ can be installed ... WARNING
Found the following significant warnings:
  closeMatchPpm.cpp:251:9: warning: ‘void free(void*)’ called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
See ‘/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... INFO
  installed size is  9.2Mb
  sub-directories of 1Mb or more:
    R      2.0Mb
    libs   6.0Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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’

Installation output

biodb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL biodb
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’
* installing *source* package ‘biodb’ ...
** this is package ‘biodb’ version ‘1.17.1’
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -c RcppExports.cpp -o RcppExports.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -c closeMatchPpm.cpp -o closeMatchPpm.o
closeMatchPpm.cpp: In function ‘Rcpp::List closeMatchPpm(Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::IntegerVector, Rcpp::IntegerVector, int, double, double)’:
closeMatchPpm.cpp:251:9: warning: ‘void free(void*)’ called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  251 |     free(pidxS);
      |     ~~~~^~~~~~~
closeMatchPpm.cpp:238:50: note: returned from ‘void* operator new [](std::size_t)’
  238 |     tIdxStruct *pidxS = new tIdxStruct[x.length()];
      |                                                  ^
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -c test-100-ms_matching.cpp -o test-100-ms_matching.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -c test-runner.cpp -o test-runner.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.5.0/lib -L/usr/local/lib -o biodb.so RcppExports.o closeMatchPpm.o test-100-ms_matching.o test-runner.o -L/home/biocbuild/R/R-4.5.0/lib -lR
installing to /home/biocbuild/R/R-4.5.0/site-library/00LOCK-biodb/00new/biodb/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 (biodb)

Tests output

biodb.Rcheck/tests/testthat.Rout


R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu

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(biodb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodb")
biodb.INFO [2025-08-26 05:02:17.151][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:17.155][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:17.165][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:17.167][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:17.169][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:17.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.175][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:17.225][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:17.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.231][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:17.233][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:17.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.239][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:17.241][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:17.243][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:17.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.249][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:17.251][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:17.253][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:17.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.259][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:17.261][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:17.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.267][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:17.269][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:17.271][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:17.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.277][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:17.279][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:17.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.283][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[2025-08-26 05:02:17.285][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:17.287][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:17.288][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:17.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.295][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:17.297][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:17.298][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:17.300][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:17.302][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:17.304][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:17.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.310][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:17.311][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:17.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.317][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:17.319][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:17.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.323][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[2025-08-26 05:02:17.324][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:17.326][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:17.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.332][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:17.333][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:17.335][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:17.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.340][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:17.342][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:17.349][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:17.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.354][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:17.356][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:17.358][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:17.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.367][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:17.416][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.441][self$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[2025-08-26 05:02:17.443][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.444][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:17.446][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.447][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.449][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.450][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.452][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:17.453][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:17.455][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.456][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:17.457][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:17.459][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.460][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.462][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:17.462][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:17.462][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:17.462][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:17.462][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:17.463][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:17.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.467][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:17.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.469][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.471][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.472][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.473][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:17.475][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:17.476][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.477][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.479][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:17.481][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.483][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:17.484][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.486][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:17.487][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.488][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.490][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.491][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.493][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:17.494][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:17.495][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.497][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:17.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:17.500][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.501][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.502][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:17.502][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:17.502][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:17.502][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:17.502][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:17.504][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:17.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.506][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.508][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:17.509][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.512][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.513][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.514][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:17.516][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:17.517][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.518][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.520][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:17.523][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.524][self$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[2025-08-26 05:02:17.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.533][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:17.534][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.537][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.538][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.540][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:17.541][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:17.542][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.544][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:17.545][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:17.546][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.549][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.551][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:17.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.553][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.554][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:17.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.558][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.559][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:17.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:17.563][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.565][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.566][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:17.569][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.570][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:17.571][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.573][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:17.574][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.577][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.578][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.579][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:17.581][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:17.582][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.584][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:17.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:17.586][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.588][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:17.589][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.591][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:17.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.594][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:17.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:17.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:17.598][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:17.600][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.601][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:17.602][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:17.604][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:17.605][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:17.610][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:17.611][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.688][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[2025-08-26 05:02:17.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.695][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[2025-08-26 05:02:17.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.701][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[2025-08-26 05:02:17.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.707][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[2025-08-26 05:02:17.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:17.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:17.715][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:17.721][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:17.723][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:17.725][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:17.727][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:17.729][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:17.731][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:17.732][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:17.734][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:17.736][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:17.738][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:17.740][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:17.742][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:17.744][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:17.746][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:17.748][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:17.750][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:17.752][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:17.754][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:17.756][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:17.758][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:17.760][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:17.762][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:17.764][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:17.766][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:17.768][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:17.770][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:17.772][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:17.774][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:17.776][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:17.778][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:17.780][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:17.782][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:17.784][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:17.786][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:17.788][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:17.790][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:17.792][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:17.794][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:17.796][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:17.798][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:17.800][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:17.801][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:17.804][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:17.805][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:17.807][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:17.809][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:17.811][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:17.813][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:17.815][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:17.817][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:17.819][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:17.821][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:17.824][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:17.832][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:17.835][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:17.836][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:17.838][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:17.840][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:17.842][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:17.844][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:17.846][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:17.848][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:17.850][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:17.852][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:17.854][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:17.855][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:17.857][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:17.859][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:17.861][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:17.863][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:17.865][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:17.867][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:17.869][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:17.871][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:17.873][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:17.875][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:17.876][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:17.878][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:17.880][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:17.882][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:17.884][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:17.886][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:17.894][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:17.896][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:17.898][biodb::testContext]
biodb.INFO [2025-08-26 05:02:17.899][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:17.900][biodb::testContext] Test context - Test abstract declaration.
biodb.INFO [2025-08-26 05:02:17.901][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:17.903][biodb::testContext]
biodb.INFO [2025-08-26 05:02:17.905][biodb::testThat]
biodb.INFO [2025-08-26 05:02:17.906][biodb::testThat] Running test function  test.abstractClass.declaration  (" An abstract class cannot be instantiated. ").
biodb.INFO [2025-08-26 05:02:17.907][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:17.909][biodb::testThat]
biodb.ERROR[2025-08-26 05:02:17.912][abstractClass] Class BiodbConnBase is abstract and thus cannot be instantiated.
biodb.INFO [2025-08-26 05:02:17.978][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:17.980][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:17.981][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:17.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:17.983][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:17.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:17.989][biodb::testContext]
biodb.INFO [2025-08-26 05:02:17.991][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:17.992][biodb::testContext] Test context - Testing Range class.
biodb.INFO [2025-08-26 05:02:17.993][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:17.994][biodb::testContext]
biodb.INFO [2025-08-26 05:02:17.996][biodb::testThat]
biodb.INFO [2025-08-26 05:02:17.997][biodb::testThat] Running test function  test_range  (" Range class works correctly. ").
biodb.INFO [2025-08-26 05:02:17.999][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:18.000][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.023][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:18.025][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:18.030][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:18.032][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:18.033][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:18.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.038][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:18.040][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:18.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.045][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:18.046][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:18.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.051][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:18.053][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:18.054][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:18.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.059][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:18.060][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:18.062][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:18.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.067][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:18.068][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:18.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.073][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:18.075][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:18.076][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:18.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.081][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:18.083][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:18.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.088][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:18.089][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:18.090][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:18.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.095][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:18.097][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:18.098][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:18.100][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:18.101][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:18.102][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:18.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.108][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:18.109][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:18.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.114][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:18.116][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:18.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.121][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:18.122][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:18.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.126][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[2025-08-26 05:02:18.127][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:18.138][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:18.139][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:18.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.144][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:18.145][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:18.150][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:18.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.155][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:18.156][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:18.158][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:18.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.163][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:18.165][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.167][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:02:18.168][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.169][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:18.170][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.172][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.173][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.174][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.176][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:18.177][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:18.178][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.180][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:18.181][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:18.182][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.184][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.185][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:18.185][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:18.185][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.185][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:18.185][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:18.186][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:18.188][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.189][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.190][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:18.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.194][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.195][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.196][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:18.198][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:18.199][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.200][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.202][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:18.204][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.205][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:18.207][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.208][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:18.209][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.211][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.212][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.213][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.215][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:18.216][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:18.217][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.219][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:18.220][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:18.222][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.223][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.224][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:18.224][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:18.224][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.224][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:18.224][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:18.226][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:18.227][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.228][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.230][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:18.231][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.234][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.235][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.237][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:18.238][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:18.239][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.241][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.242][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:18.245][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.246][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:02:18.247][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.249][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:18.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.251][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.253][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.254][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.255][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:18.257][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:18.258][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.260][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:18.261][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:18.262][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.264][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.265][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.266][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:18.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.270][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:18.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.274][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.275][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.277][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:18.278][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:18.279][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.281][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.282][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:18.285][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.286][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:18.287][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.293][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:18.294][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.296][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.301][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.303][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.304][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:18.310][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:18.311][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.317][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:18.318][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:18.320][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.325][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:18.327][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.328][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:18.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.335][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.336][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:18.342][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:18.343][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:18.345][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:18.347][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.348][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:18.349][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:18.351][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:18.357][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:18.359][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:18.362][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.413][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[2025-08-26 05:02:18.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:18.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.470][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:18.472][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:18.474][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:18.476][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:18.478][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:18.480][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:18.481][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:18.483][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:18.485][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:18.487][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:18.489][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:18.491][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:18.493][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:18.495][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:18.497][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:18.498][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:18.500][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:18.502][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:18.504][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:18.506][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:18.508][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:18.510][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:18.512][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:18.514][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:18.516][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:18.518][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:18.519][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:18.521][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:18.523][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:18.525][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:18.527][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:18.529][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:18.531][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:18.533][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:18.535][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:18.537][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:18.539][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:18.541][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:18.543][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:18.545][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:18.547][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:18.549][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:18.551][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:18.553][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:18.555][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:18.557][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:18.559][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:18.561][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:18.563][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:18.565][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:18.567][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:18.569][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:18.571][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:18.573][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:18.575][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:18.576][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:18.578][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:18.580][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:18.582][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:18.584][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:18.586][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:18.588][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:18.590][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:18.592][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:18.594][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:18.596][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:18.598][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:18.600][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:18.602][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:18.604][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:18.605][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:18.607][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:18.609][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:18.611][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:18.613][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:18.615][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:18.617][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:18.619][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:18.621][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:18.623][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:18.625][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:18.627][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:18.629][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:18.631][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:18.633][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:18.634][biodb::testContext]
biodb.INFO [2025-08-26 05:02:18.636][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:18.637][biodb::testContext] Test context - Test object printing.
biodb.INFO [2025-08-26 05:02:18.639][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:18.640][biodb::testContext]
biodb.INFO [2025-08-26 05:02:18.642][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.643][biodb::testThat] Running test function  test.BiodbMain.print  (" BiodbMain print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:18.645][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:18.646][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.656][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.658][biodb::testThat] Running test function  test.BiodbConfig.print  (" BiodbConfig print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:18.659][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:18.660][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.671][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.673][biodb::testThat] Running test function  test.BiodbFactory.print  (" BiodbFactory print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:18.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:18.675][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.688][biodb::testThat]
biodb.INFO [2025-08-26 05:02:18.689][biodb::testThat] Running test function  test.BiodbEntry.print  (" BiodbEntry print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:18.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:18.692][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:18.713][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:18.715][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:18.742][private$loadEntries] Creating entries from ids [1]: "C1".
biodb.DEBUG[2025-08-26 05:02:18.750][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 05:02:18.752][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:18.753][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:18.755][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:18.756][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:18.757][private$doGetEntryContentFromDb] Entry id: C1
biodb.DEBUG[2025-08-26 05:02:18.759][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:18.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:18.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:18.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.782][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.825][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2025-08-26 05:02:18.826][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:18.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:18.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.833][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.833][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.834][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2025-08-26 05:02:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:18.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:18.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.841][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.841][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.841][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.843][self$setField] Set field peak.comp to column(s) peak.comp.
biodb.TRACE[2025-08-26 05:02:18.844][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:18.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:18.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.850][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.850][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.850][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.850][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.851][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2025-08-26 05:02:18.853][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:18.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:18.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.858][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.858][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.858][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.858][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.858][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.860][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:18.861][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:18.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:18.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.867][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.867][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.867][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.867][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.867][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.867][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.869][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:02:18.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:18.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:18.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.876][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.877][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:02:18.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:18.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:18.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.884][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.937][private$doGetEntryContentFromDb] Content of first entry: accession	ms.mode	peak.mztheo	peak.comp	peak.attr	formula	molecular.mass	name
C1	pos	112.07569	P9Z6W410 O	[(M+H)-(H2O)-(NH3)]+	J114L6M62O2	146.10553	Blablaine
biodb.DEBUG[2025-08-26 05:02:18.939][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:18.941][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:18.945][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:18.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:18.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:18.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:18.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:18.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.982][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.983][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.985][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.986][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.988][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.989][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.991][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:18.992][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.TRACE[2025-08-26 05:02:18.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:18.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:18.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:18.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:18.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.005][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:19.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:19.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.045][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:19.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:19.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.080][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.086][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.097][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.108][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:19.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:19.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.114][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:19.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:19.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:19.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:19.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:19.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:19.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:19.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:19.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:19.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:19.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.143][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.148][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.165][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:19.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:19.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.253][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.264][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.270][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.275][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.281][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:19.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:19.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:19.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:19.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.292][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:19.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.345][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.351][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.357][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:19.358][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:19.359][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:19.361][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:19.362][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.364][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.368][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:19.369][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:19.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.373][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.375][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.379][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.380][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.384][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.386][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.390][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:19.391][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:19.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.395][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:19.396][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:19.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.400][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:19.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:19.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.406][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.407][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.411][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:19.412][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.414][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.418][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.419][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.423][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.425][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.429][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.430][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.434][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:19.435][private$organizeFieldsByGroups] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:19.437][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.438][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.442][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.444][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.448][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.449][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.459][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.461][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.465][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.comp", "peak.attr", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:19.467][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.472][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.478][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:19.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.483][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.489][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.494][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:19.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.500][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.505][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.510][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.516][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.527][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:19.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:19.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:19.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:19.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:19.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.562][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:19.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.568][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.573][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.579][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.585][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:19.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.590][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.596][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.601][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:19.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:19.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:19.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.612][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:19.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:19.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:19.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:19.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:19.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:19.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:19.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:19.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:19.661][self$createEntryFromContent] Accession numbers: C1.
biodb.INFO [2025-08-26 05:02:19.678][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:19.683][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.684][biodb::testThat] Running test function  test.BiodbConn.print  (" BiodbConn print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:19.686][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.687][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:19.740][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:19.759][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2025-08-26 05:02:19.843][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.844][biodb::testThat] Running test function  test.BiodbDbsInfo.print  (" BiodbDbsInfo print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:19.845][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.847][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.856][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.858][biodb::testThat] Running test function  test.BiodbEntryFields.print  (" BiodbEntryFields print method returns correct information. ").
biodb.INFO [2025-08-26 05:02:19.859][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.860][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.869][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-26 05:02:19.871][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2025-08-26 05:02:19.872][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:19.874][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:19.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:19.877][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:19.878][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.INFO [2025-08-26 05:02:19.883][biodb::testContext]
biodb.INFO [2025-08-26 05:02:19.885][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:19.887][biodb::testContext] Test context - Testing mass functions
biodb.INFO [2025-08-26 05:02:19.888][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:19.889][biodb::testContext]
biodb.INFO [2025-08-26 05:02:19.891][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.892][biodb::testThat] Running test function  test_convertTolToRange  (" Conversion from tolerance to range works correctly. ").
biodb.INFO [2025-08-26 05:02:19.894][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.895][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.928][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.929][biodb::testThat] Running test function  test_closeMatchPpm  (" closeMatchPpm() works correctly. ").
biodb.INFO [2025-08-26 05:02:19.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.932][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.964][biodb::testContext]
biodb.INFO [2025-08-26 05:02:19.965][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:19.967][biodb::testContext] Test context - Testing biodb functions
biodb.INFO [2025-08-26 05:02:19.968][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:19.969][biodb::testContext]
biodb.INFO [2025-08-26 05:02:19.971][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.972][biodb::testThat] Running test function  test_connNameToClassPrefix  (" We can convert a connector name into a class prefix. ").
biodb.INFO [2025-08-26 05:02:19.973][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.975][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.986][biodb::testThat]
biodb.INFO [2025-08-26 05:02:19.988][biodb::testThat] Running test function  test_extractVersion  (" We can extract the version number from a template file. ").
biodb.INFO [2025-08-26 05:02:19.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:19.990][biodb::testThat]
biodb.INFO [2025-08-26 05:02:20.005][biodb::testContext]
biodb.INFO [2025-08-26 05:02:20.006][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:20.007][biodb::testContext] Test context - Testing miscellaneous functions
biodb.INFO [2025-08-26 05:02:20.009][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:20.010][biodb::testContext]
biodb.INFO [2025-08-26 05:02:20.011][biodb::testThat]
biodb.INFO [2025-08-26 05:02:20.013][biodb::testThat] Running test function  test_splitVersion  (" We can split version string. ").
biodb.INFO [2025-08-26 05:02:20.014][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:20.015][biodb::testThat]
biodb.INFO [2025-08-26 05:02:20.032][biodb::testThat]
biodb.INFO [2025-08-26 05:02:20.033][biodb::testThat] Running test function  test_compareVersions  (" We can compare string versions. ").
biodb.INFO [2025-08-26 05:02:20.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:20.036][biodb::testThat]
biodb.INFO [2025-08-26 05:02:20.066][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:20.068][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:20.073][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:20.074][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:20.076][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:20.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.080][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:20.082][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:20.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.087][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:20.088][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:20.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.093][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:20.095][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:20.096][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:20.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.101][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:20.102][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:20.104][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:20.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.109][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:20.110][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:20.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.115][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:20.117][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:20.118][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:20.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.123][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:20.125][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:20.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.130][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:20.131][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:20.133][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:20.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.137][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:20.139][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:20.140][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:20.142][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:20.143][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:20.144][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:20.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.149][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:20.151][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:20.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.156][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:20.157][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:20.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.162][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:20.164][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:20.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.169][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:20.170][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:20.172][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:20.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.177][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:20.178][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:20.183][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:20.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.188][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:20.189][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:20.197][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:20.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.203][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:20.205][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.207][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:02:20.208][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.209][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:20.211][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.212][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.213][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.215][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.216][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:20.217][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:20.219][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.220][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:20.221][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:20.223][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.224][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.225][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:20.225][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:20.225][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.225][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:20.225][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:20.227][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:20.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.231][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:20.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.234][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.236][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.237][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:20.238][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:20.240][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.241][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.243][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:20.245][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.246][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:20.248][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.249][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:20.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.252][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.253][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.255][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.256][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:20.257][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:20.259][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.260][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:20.261][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:20.263][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.264][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.266][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:20.266][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:20.266][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.266][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:20.266][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:20.267][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:20.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.271][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:20.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.275][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.276][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.278][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:20.279][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:20.280][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.282][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.283][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:20.286][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.287][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:02:20.289][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.290][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:20.292][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.293][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.294][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.296][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.297][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:20.299][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:20.300][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.301][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:20.303][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:20.304][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.306][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.307][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.309][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:20.310][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.313][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:20.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.317][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.318][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.319][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:20.321][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:20.322][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.324][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.325][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:20.328][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.330][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:20.331][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.333][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:20.334][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.335][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.337][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.338][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.340][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:20.341][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:20.343][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.344][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:20.345][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:20.347][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.348][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:20.350][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.351][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:20.352][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.355][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:20.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:20.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:20.359][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:20.360][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.362][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:20.363][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:20.365][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:20.366][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:20.368][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:20.369][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:20.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.478][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:20.480][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:20.482][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:20.484][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:20.486][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:20.488][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:20.490][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:20.492][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:20.494][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:20.496][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:20.498][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:20.500][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:20.501][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:20.503][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:20.505][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:20.507][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:20.509][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:20.511][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:20.513][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:20.515][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:20.517][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:20.519][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:20.521][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:20.523][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:20.525][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:20.527][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:20.529][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:20.531][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:20.533][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:20.535][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:20.537][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:20.539][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:20.541][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:20.543][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:20.545][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:20.547][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:20.549][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:20.551][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:20.553][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:20.555][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:20.557][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:20.559][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:20.561][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:20.563][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:20.565][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:20.567][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:20.569][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:20.571][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:20.573][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:20.575][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:20.577][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:20.579][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:20.581][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:20.583][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:20.585][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:20.587][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:20.589][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:20.591][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:20.593][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:20.595][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:20.597][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:20.599][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:20.601][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:20.603][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:20.605][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:20.607][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:20.609][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:20.611][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:20.613][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:20.615][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:20.617][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:20.619][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:20.621][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:20.623][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:20.625][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:20.627][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:20.628][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:20.630][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:20.632][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:20.634][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:20.636][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:20.638][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:20.641][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:20.643][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:20.645][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:20.646][biodb::testContext]
biodb.INFO [2025-08-26 05:02:20.648][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:20.649][biodb::testContext] Test context - Test messages.
biodb.INFO [2025-08-26 05:02:20.650][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:20.652][biodb::testContext]
biodb.INFO [2025-08-26 05:02:20.653][biodb::testThat]
biodb.INFO [2025-08-26 05:02:20.655][biodb::testThat] Running test function  test.deprecatedMethods  (" Deprecated methods send correct message. ").
biodb.INFO [2025-08-26 05:02:20.656][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:20.657][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:20.664][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:20.665][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:20.667][private$loadEntries] Creating entries from ids [1]: "C1".
biodb.DEBUG[2025-08-26 05:02:20.669][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 05:02:20.671][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:20.679][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:20.681][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:20.682][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:20.684][private$doGetEntryContentFromDb] Entry id: C1
biodb.DEBUG[2025-08-26 05:02:20.685][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:20.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:20.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:20.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.692][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.694][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2025-08-26 05:02:20.696][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.701][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.701][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.703][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.704][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.710][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.710][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.710][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.711][self$setField] Set field peak.comp to column(s) peak.comp.
biodb.TRACE[2025-08-26 05:02:20.713][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:20.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:20.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.718][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.718][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.718][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.718][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.720][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2025-08-26 05:02:20.721][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:20.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:20.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.727][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.727][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.727][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.727][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.727][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.729][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:20.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:20.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:20.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.736][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.736][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.736][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.736][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.736][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.736][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.737][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.744][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.746][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:02:20.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:20.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:20.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.753][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.758][private$doGetEntryContentFromDb] Content of first entry: accession	ms.mode	peak.mztheo	peak.comp	peak.attr	formula	molecular.mass	name
C1	pos	112.07569	P9Z6W410 O	[(M+H)-(H2O)-(NH3)]+	J114L6M62O2	146.10553	Blablaine
biodb.DEBUG[2025-08-26 05:02:20.760][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:20.762][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:20.763][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:20.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:20.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:20.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:20.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:20.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.776][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.778][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.779][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.781][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.782][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.784][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.785][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:20.787][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.TRACE[2025-08-26 05:02:20.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:20.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:20.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:20.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:20.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.800][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.806][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.812][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.818][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.823][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:20.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:20.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.829][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:20.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:20.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.835][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:20.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:20.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.841][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:20.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:20.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:20.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:20.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:20.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:20.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:20.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:20.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:20.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:20.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.881][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.898][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.904][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:20.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:20.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.909][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.915][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.928][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.933][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.938][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.944][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.949][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:20.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:20.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.955][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:20.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:20.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.960][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:20.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.972][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:20.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.977][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:20.979][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:20.980][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:20.981][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:20.983][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:20.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:20.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.988][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.990][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:20.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.994][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.995][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:20.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:20.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:20.999][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.001][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.005][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.006][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.010][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:21.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:21.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.015][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.016][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:21.017][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:21.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.022][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:21.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:21.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.027][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.029][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.033][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:21.034][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.036][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.040][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.041][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.045][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.047][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.051][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.052][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.056][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:21.058][private$organizeFieldsByGroups] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:21.059][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.061][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.065][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.066][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.070][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.072][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.076][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.077][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.081][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.comp", "peak.attr", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:21.083][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.088][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.094][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:21.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.100][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.105][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2025-08-26 05:02:21.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.117][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.122][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.133][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.139][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.144][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:21.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:21.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:21.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:21.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:21.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:21.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.174][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:21.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:21.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.179][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.196][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:21.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.207][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.213][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:21.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.218][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:21.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:21.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.224][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:21.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:21.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:21.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:21.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:21.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:21.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:21.276][self$createEntryFromContent] Accession numbers: C1.
biodb.DEBUG[2025-08-26 05:02:21.894][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2025-08-26 05:02:21.896][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:21.906][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:22.079][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2025-08-26 05:02:22.079][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2025-08-26 05:02:22.093][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:22.095][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:22.442][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2025-08-26 05:02:22.442][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2025-08-26 05:02:22.444][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:22.454][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.WARN [2025-08-26 05:02:22.608][self$searchForEntries] This database is not searchable by field "name".
biodb.TRACE[2025-08-26 05:02:22.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:22.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:22.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:22.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:22.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:22.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:22.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:22.861][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:22.875][biodb::testThat]
biodb.INFO [2025-08-26 05:02:22.884][biodb::testThat] Running test function  test.default.messages  (" Test what messages are printed by default. ").
biodb.INFO [2025-08-26 05:02:22.886][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:22.887][biodb::testThat]
biodb.INFO [2025-08-26 05:02:23.113][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:23.115][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:23.116][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:23.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:23.127][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:23.151][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:23.162][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:23.175][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:23.185][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:23.187][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:23.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.209][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:23.210][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:23.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.232][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:23.234][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:23.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.257][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:23.259][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:23.269][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:23.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.283][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:23.293][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:23.295][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:23.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.317][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:23.319][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:23.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.332][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[2025-08-26 05:02:23.342][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:23.343][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:23.353][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:23.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.367][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:23.377][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:23.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.392][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:23.402][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:23.404][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:23.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.427][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:23.437][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:23.438][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:23.440][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:23.450][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:23.451][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:23.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.473][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:23.475][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:23.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.497][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:23.499][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:23.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.522][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:23.524][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:23.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.546][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:23.548][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:23.558][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:23.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.581][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:23.583][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:23.605][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:23.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:23.616][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:23.626][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:23.628][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:23.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:23.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:23.649][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[2025-08-26 05:02:23.651][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:23.662][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:23.664][self$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[2025-08-26 05:02:23.674][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.675][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:23.685][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.687][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:23.697][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:23.699][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:23.709][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:23.711][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:23.721][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.723][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:23.733][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:23.735][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:23.745][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.747][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:23.747][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:23.747][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:23.747][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:23.747][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:23.757][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:23.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:23.769][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:23.770][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:23.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:23.782][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:23.784][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:23.793][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:23.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:23.805][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:23.807][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:23.808][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:23.818][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:23.830][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:23.832][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:23.842][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.843][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:23.854][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.855][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:23.865][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:23.868][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:23.878][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:23.913][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:23.915][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.926][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:23.927][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:23.937][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:23.939][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:23.949][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:23.949][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:23.949][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:23.949][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:23.949][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:23.951][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:23.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:23.962][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:23.964][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:23.973][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:23.975][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:23.985][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:23.986][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:23.988][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:23.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:24.000][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.010][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.012][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:24.023][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.033][self$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[2025-08-26 05:02:24.035][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.036][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:24.046][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.048][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:24.057][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.059][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:24.069][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:24.071][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:24.072][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.082][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:24.084][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:24.093][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.095][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.105][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.107][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:24.108][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:24.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:24.119][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:24.129][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:24.131][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:24.132][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:24.142][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.144][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:24.153][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:24.155][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.165][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.167][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:24.178][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.180][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:24.189][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.191][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:24.192][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.202][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:24.204][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.213][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:24.215][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:24.216][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:24.226][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.228][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:24.237][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:24.239][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.240][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:24.250][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.251][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:24.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:24.263][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:24.264][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:24.274][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:24.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:24.285][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:24.287][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.296][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:24.298][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:24.300][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:24.310][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:24.312][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:24.322][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.323][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[2025-08-26 05:02:24.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.562][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[2025-08-26 05:02:24.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:24.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:24.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:24.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:24.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:24.681][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:24.683][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:24.694][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:24.720][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:24.730][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:24.741][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:24.743][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:24.754][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:24.756][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:24.766][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:24.777][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:24.779][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:24.789][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:24.791][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:24.802][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:24.804][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:24.814][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:24.825][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:24.827][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:24.837][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:24.840][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:24.850][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:24.860][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:24.863][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:24.873][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:24.875][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:24.886][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:24.888][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:24.898][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:24.909][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:24.911][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:24.921][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:24.924][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:24.934][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:24.936][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:24.947][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:24.957][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:24.959][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:24.970][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:24.972][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:24.983][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:24.993][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:24.995][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:25.006][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:25.008][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:25.018][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:25.029][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:25.031][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:25.042][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:25.044][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:25.055][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:25.065][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:25.067][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:25.078][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:25.080][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:25.090][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:25.101][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:25.103][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:25.114][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:25.116][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:25.127][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:25.137][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:25.139][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:25.150][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:25.152][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:25.163][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:25.173][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:25.175][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:25.182][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:25.184][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:25.191][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:25.197][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:25.199][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:25.206][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:25.208][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:25.215][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:25.221][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:25.223][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:25.230][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:25.232][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:25.239][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:25.245][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:25.247][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:25.254][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:25.256][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:25.262][biodb::testContext]
biodb.INFO [2025-08-26 05:02:25.264][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:25.269][biodb::testContext] Test context - Test config.
biodb.INFO [2025-08-26 05:02:25.271][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:25.272][biodb::testContext]
biodb.INFO [2025-08-26 05:02:25.278][biodb::testThat]
biodb.INFO [2025-08-26 05:02:25.280][biodb::testThat] Running test function  test.listKeys  (" Keys are listed correctly. ").
biodb.INFO [2025-08-26 05:02:25.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:25.287][biodb::testThat]
biodb.INFO [2025-08-26 05:02:25.351][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:25.352][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:25.358][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:25.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:25.365][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:25.384][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:25.391][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:25.421][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:25.423][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:25.429][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:25.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.438][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:25.440][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:25.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.454][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:25.455][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:25.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.469][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:25.471][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:25.477][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:25.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.487][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:25.488][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:25.494][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:25.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.504][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:25.510][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:25.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.520][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:25.525][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:25.527][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:25.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.536][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[2025-08-26 05:02:25.541][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:25.543][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:25.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.557][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:25.559][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:25.565][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:25.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.575][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:25.581][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:25.583][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:25.589][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:25.590][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:25.592][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:25.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.606][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:25.608][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:25.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.623][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:25.628][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:25.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.639][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:25.640][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:25.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.654][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:25.656][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:25.662][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:25.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.672][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:25.678][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:25.685][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:25.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.691][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:25.697][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:25.699][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:25.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:25.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:25.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:25.713][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:25.716][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.722][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:02:25.724][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.729][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:25.731][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.739][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.744][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.746][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:25.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:25.754][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.755][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:25.761][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:25.763][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.768][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.770][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:25.770][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:25.770][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:25.770][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:25.770][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:25.772][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:25.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:25.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:25.784][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:25.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:25.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:25.793][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.795][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.796][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:25.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:25.804][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.810][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.812][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:25.819][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.825][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:25.827][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:25.834][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.835][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.841][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.843][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.848][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:25.850][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:25.852][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.858][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:25.859][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:25.865][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.867][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.873][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:25.873][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:25.873][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:25.873][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:25.873][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:25.874][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:25.876][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:25.882][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:25.883][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:25.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:25.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:25.892][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.898][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.899][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:25.905][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:25.906][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.908][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.914][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:25.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.922][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:02:25.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.930][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:25.931][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.953][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.961][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:25.963][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:25.968][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:25.970][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:25.972][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:25.977][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:25.979][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.985][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:25.987][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:25.988][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:25.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:25.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:26.001][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:26.003][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:26.004][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:26.010][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:26.011][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:26.017][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:26.019][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:26.020][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:26.026][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:26.028][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:26.035][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:26.041][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:26.043][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:26.049][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:26.051][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:26.056][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:26.059][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:26.060][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:26.066][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:26.068][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:26.074][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:26.075][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:26.081][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:26.083][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:26.088][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:26.090][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:26.092][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:26.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:26.099][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:26.105][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:26.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:26.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:26.114][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:26.116][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:26.122][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:26.123][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:26.129][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:26.131][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:26.137][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:26.139][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.219][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[2025-08-26 05:02:26.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.234][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.DEBUG[2025-08-26 05:02:26.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.250][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[2025-08-26 05:02:26.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.298][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[2025-08-26 05:02:26.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:26.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.372][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[2025-08-26 05:02:26.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:26.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:26.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:26.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:26.387][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[2025-08-26 05:02:26.393][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:26.395][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:26.402][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:26.404][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:26.410][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:26.417][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:26.419][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:26.426][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:26.428][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:26.435][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:26.441][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:26.444][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:26.451][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:26.457][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:26.460][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:26.467][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:26.474][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:26.480][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:26.500][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:26.507][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:26.514][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:26.521][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:26.523][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:26.530][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:26.537][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:26.539][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:26.546][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:26.553][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:26.555][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:26.562][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:26.569][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:26.571][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:26.578][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:26.580][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:26.587][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:26.593][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:26.596][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:26.602][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:26.609][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:26.611][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:26.618][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:26.629][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:26.631][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:26.638][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:26.640][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:26.646][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:26.653][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:26.655][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:26.662][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:26.664][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:26.671][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:26.677][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:26.680][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:26.686][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:26.693][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:26.695][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:26.702][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:26.709][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:26.712][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:26.719][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:26.726][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:26.728][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:26.735][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:26.741][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:26.744][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:26.750][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:26.757][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:26.759][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:26.765][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:26.768][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:26.774][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:26.781][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:26.783][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:26.789][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:26.792][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:26.798][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:26.800][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:26.807][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:26.813][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:26.815][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:26.822][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:26.824][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:26.830][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:26.837][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:26.839][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:26.845][biodb::testContext]
biodb.INFO [2025-08-26 05:02:26.847][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:26.848][biodb::testContext] Test context - Test BiodbMain instance.
biodb.INFO [2025-08-26 05:02:26.854][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:26.855][biodb::testContext]
biodb.INFO [2025-08-26 05:02:26.861][biodb::testThat]
biodb.INFO [2025-08-26 05:02:26.863][biodb::testThat] Running test function  test.convertEntryIdFieldToDbClass  (" convertEntryIdFieldToDbClass() works correctly. ").
biodb.INFO [2025-08-26 05:02:26.868][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:26.870][biodb::testThat]
biodb.INFO [2025-08-26 05:02:26.921][biodb::testThat]
biodb.INFO [2025-08-26 05:02:26.923][biodb::testThat] Running test function  test.collapseRows  (" collapseRows() works correctly. ").
biodb.INFO [2025-08-26 05:02:26.932][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:26.934][biodb::testThat]
biodb.INFO [2025-08-26 05:02:27.121][biodb::testThat]
biodb.INFO [2025-08-26 05:02:27.123][biodb::testThat] Running test function  test.entriesToDataframe  (" entriesToDataframe() works correctly. ").
biodb.INFO [2025-08-26 05:02:27.124][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:27.134][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:27.144][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:27.149][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:27.158][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:27.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:27.174][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:27.176][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:27.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:27.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:27.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:27.196][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:27.196][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:27.198][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:27.200][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:27.215][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:27.215][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:27.215][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:27.224][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2025-08-26 05:02:27.231][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2025-08-26 05:02:27.237][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:27.239][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:27.240][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:27.246][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:27.247][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2025-08-26 05:02:27.262][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	80
biodb.DEBUG[2025-08-26 05:02:27.264][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:27.270][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2025-08-26 05:02:27.272][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:27.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:27.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:27.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:27.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:27.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:27.301][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:27.301][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:27.301][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:27.303][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:27.303][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:27.303][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:27.309][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:27.309][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:27.309][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:27.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.341][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:27.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:27.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.351][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:27.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:27.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.366][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.381][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.392][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.421][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.431][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.446][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:27.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:27.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.486][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:27.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:27.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.501][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:27.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:27.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.512][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:27.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:27.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.558][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.572][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:27.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:27.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:27.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:27.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.597][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:27.599][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:27.600][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:27.606][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:27.607][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.621][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:27.623][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:27.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.632][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.637][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.646][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:27.647][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:27.653][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:27.654][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:27.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:27.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:27.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:27.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:27.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:27.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:27.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.696][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.710][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:27.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:27.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.724][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:27.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:27.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:27.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:27.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:27.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:27.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:27.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:27.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:27.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:27.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:27.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:27.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.883][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:27.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.897][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.923][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.937][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.947][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.962][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:27.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.972][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:27.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:27.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:27.987][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:27.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:27.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:27.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.001][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:28.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:28.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.026][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:28.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:28.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.052][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:28.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:28.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.100][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.128][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:28.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:28.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.139][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:28.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:28.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.154][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:28.156][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:28.161][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:28.163][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:28.164][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.179][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:28.185][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:28.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.194][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.195][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.204][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:28.210][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:28.211][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:28.217][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:28.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:28.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:28.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.258][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.273][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.284][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:28.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:28.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:28.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:28.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:28.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:28.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.411][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:28.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:28.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:28.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:28.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.436][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.451][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.481][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.492][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.506][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.521][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:28.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:28.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.531][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.577][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:28.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:28.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.587][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:28.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:28.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.601][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:28.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:28.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.617][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:28.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.642][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:28.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:28.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:28.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.667][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:28.673][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:28.675][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:28.676][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:28.682][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.683][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.692][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:28.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:28.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.706][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.708][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.721][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:28.723][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:28.729][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:28.731][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:28.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:28.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:28.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.777][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:28.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.788][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.803][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.828][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:28.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:28.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:28.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:28.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:29.004][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.DEBUG[2025-08-26 05:02:29.156][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:29.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:29.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.228][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.315][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.321][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.323][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.328][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.330][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.332][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.338][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.348][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.354][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.371][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.392][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.393][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.395][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.399][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2025-08-26 05:02:29.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.419][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C3H10N2].
biodb.DEBUG[2025-08-26 05:02:29.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.425][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:29.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.438][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.439][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.441][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.442][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.443][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.444][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.446][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.449][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.455][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.456][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.457][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.459][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.463][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2025-08-26 05:02:29.464][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.469][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.491][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H12O6].
biodb.DEBUG[2025-08-26 05:02:29.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:29.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.504][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.510][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.511][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.512][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.513][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.515][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.516][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.517][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.521][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.523][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.527][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.528][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.529][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.531][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.535][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2025-08-26 05:02:29.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.541][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.553][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H8O7].
biodb.DEBUG[2025-08-26 05:02:29.554][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:29.555][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:29.561][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:29.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:29.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.625][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.626][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.628][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.642][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.644][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.649][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.659][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.664][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.668][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.669][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.671][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.676][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2025-08-26 05:02:29.678][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.690][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C3H10N2].
biodb.DEBUG[2025-08-26 05:02:29.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.702][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:29.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.715][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.717][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.718][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.719][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.721][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.722][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.724][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.728][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.729][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.742][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.744][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.745][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.747][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.752][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2025-08-26 05:02:29.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.771][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H12O6].
biodb.DEBUG[2025-08-26 05:02:29.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:29.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.790][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.792][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.793][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.794][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.796][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.797][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.799][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.803][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.808][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.810][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2025-08-26 05:02:29.811][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.812][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.816][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2025-08-26 05:02:29.818][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.824][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H8O7].
biodb.DEBUG[2025-08-26 05:02:29.837][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:29.839][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:29.843][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:29.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:29.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:29.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:29.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:29.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:29.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.875][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:29.877][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:29.878][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:29.880][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:29.894][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:29.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.901][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.921][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.923][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.932][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.942][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.954][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.969][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:29.971][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:29.972][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.973][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.977][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:29.979][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:29.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.983][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2025-08-26 05:02:29.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:29.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:29.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:29.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:29.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.012][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.021][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A1, C3H10N2].
biodb.DEBUG[2025-08-26 05:02:30.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.028][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:30.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.051][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.056][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.061][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.062][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:30.064][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:30.065][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:30.066][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.068][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.069][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.073][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.090][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.092][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.100][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.106][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.114][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.115][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.119][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.125][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.126][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.130][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2025-08-26 05:02:30.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.154][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.166][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A2, C6H12O6].
biodb.DEBUG[2025-08-26 05:02:30.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:30.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.196][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.197][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:30.198][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:30.200][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:30.201][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.203][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.204][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.208][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.213][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.215][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.219][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.224][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.226][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:30.227][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.229][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.233][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.235][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.239][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2025-08-26 05:02:30.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.262][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.274][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A3, C6H8O7].
biodb.DEBUG[2025-08-26 05:02:30.276][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:30.277][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:30.281][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:30.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:30.298][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.304][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.309][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.310][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:30.311][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:30.313][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:30.314][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.315][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.317][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.320][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.322][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.323][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.325][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.327][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.328][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2025-08-26 05:02:30.330][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.335][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.341][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.346][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [80].
biodb.DEBUG[2025-08-26 05:02:30.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:30.354][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.359][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.365][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.366][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:30.367][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:30.369][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:30.370][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.371][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.373][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.377][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.378][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.379][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.381][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.385][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2025-08-26 05:02:30.386][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.392][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.397][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [90].
biodb.DEBUG[2025-08-26 05:02:30.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:30.411][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.417][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.422][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.423][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:30.425][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:30.426][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:30.427][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.429][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.431][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.435][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.436][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:30.438][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.439][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.443][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2025-08-26 05:02:30.445][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.450][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.456][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.462][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [100;110].
biodb.DEBUG[2025-08-26 05:02:30.463][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:30.464][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:02:30.468][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:30.474][biodb::testThat]
biodb.INFO [2025-08-26 05:02:30.475][biodb::testThat] Running test function  test.entriesToDataframe.listOfListInput  (" entriesToDataframe() handles list of list in input. ").
biodb.INFO [2025-08-26 05:02:30.476][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:30.478][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:30.531][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:30.532][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:30.534][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:30.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:30.541][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:30.543][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:30.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:30.550][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:30.550][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:30.552][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:30.553][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:30.559][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:30.559][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:30.559][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:30.581][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2025-08-26 05:02:30.582][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2025-08-26 05:02:30.584][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:30.585][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:30.587][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:30.588][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:30.589][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2025-08-26 05:02:30.595][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	80
biodb.DEBUG[2025-08-26 05:02:30.597][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:30.633][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2025-08-26 05:02:30.635][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:30.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:30.646][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:30.646][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:30.646][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:30.648][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:30.648][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:30.648][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:30.649][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:30.649][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:30.649][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:30.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.691][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.696][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.702][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.707][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:30.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.721][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:30.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.727][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.733][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:30.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:30.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:30.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:30.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:30.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:30.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.750][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.755][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:30.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:30.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:30.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:30.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.772][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:30.773][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:30.774][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:30.775][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:30.777][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.778][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.782][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.784][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.788][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.789][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.793][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:30.795][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:30.796][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:30.802][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:30.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:30.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:30.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:30.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:30.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:30.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:30.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.823][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.830][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:30.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:30.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.837][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:30.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:30.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.849][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:30.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:30.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:30.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:30.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:30.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:30.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:30.880][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:30.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:30.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:30.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:30.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:30.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.916][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:30.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.922][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.928][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.941][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.947][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:30.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:30.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:30.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:30.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.976][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:30.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:30.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.993][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:30.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:30.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:31.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:31.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.006][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.012][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.024][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.029][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.031][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:31.032][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.034][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:31.035][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.037][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.041][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.043][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.047][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.049][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.053][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.055][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.056][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:31.058][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:31.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:31.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.077][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.089][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:31.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:31.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:31.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:31.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:31.134][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:31.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.149][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.161][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.173][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.178][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.184][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.190][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.195][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.201][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.207][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.220][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:31.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:31.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:31.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.232][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:31.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.255][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.261][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.262][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:31.263][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.264][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:31.266][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.272][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.277][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.279][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.283][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.284][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.286][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:31.287][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:31.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:31.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:31.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:31.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.307][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.313][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.319][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.330][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:31.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:31.406][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.DEBUG[2025-08-26 05:02:31.408][biodb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:31.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:31.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:31.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:31.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:31.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:31.417][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:31.419][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2025-08-26 05:02:31.420][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:31.421][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:31.425][biodb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:31.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:31.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:31.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:31.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:31.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:31.434][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:31.436][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2025-08-26 05:02:31.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:31.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:31.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:31.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:31.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:31.452][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:31.454][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2025-08-26 05:02:31.455][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:31.457][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:31.461][biodb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:31.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:31.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:31.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:31.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:31.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:31.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.482][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.487][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.493][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.494][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:31.495][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.497][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.498][private$selectFields] Fields [4]: "accession, formula, msprecmz, mass.csv.file.id"
biodb.TRACE[2025-08-26 05:02:31.499][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.505][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.506][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.511][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.512][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.516][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.518][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.524][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.526][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.531][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.532][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.536][private$selectFields] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:31.538][private$organizeFieldsByGroups] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:31.539][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.545][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.550][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.552][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.556][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:31.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.580][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.592][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.598][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.612][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.632][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A3, C6H8O7, 100;110;120].
biodb.DEBUG[2025-08-26 05:02:31.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:31.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:31.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:31.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:31.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:31.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.665][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.689][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.699][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.706][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:31.707][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.712][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.714][private$selectFields] Fields [4]: "accession, formula, msprecmz, mass.csv.file.id"
biodb.TRACE[2025-08-26 05:02:31.715][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.730][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.739][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.745][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.769][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.771][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.780][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.786][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.794][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.795][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.804][private$selectFields] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:31.809][private$organizeFieldsByGroups] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:31.811][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.812][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.824][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.834][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.836][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.844][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:31.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.896][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.908][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.913][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.919][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.927][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A1, C3H10N2, 80].
biodb.TRACE[2025-08-26 05:02:31.929][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:31.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.941][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:31.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.947][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:31.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.952][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:31.954][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:31.955][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.956][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:31.958][private$selectFields] Fields [4]: "accession, formula, msprecmz, mass.csv.file.id"
biodb.TRACE[2025-08-26 05:02:31.959][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.970][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.972][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.976][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.978][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.980][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.982][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:31.983][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:31.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.987][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.989][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:31.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:31.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:31.993][private$selectFields] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:31.995][private$organizeFieldsByGroups] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:31.996][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:31.997][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:31.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.006][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:32.007][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:32.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.016][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.022][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.030][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:32.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:32.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:32.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:32.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:32.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:32.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:32.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:32.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:32.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.080][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:32.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:32.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:32.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:32.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.109][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.134][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.149][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:32.166][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A2, C6H12O6, 90].
biodb.DEBUG[2025-08-26 05:02:32.167][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:32.174][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A1|A2, C3H10N2|C6H12O6, 80|90].
biodb.DEBUG[2025-08-26 05:02:32.176][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:32.181][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:02:32.190][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:32.200][biodb::testThat]
biodb.INFO [2025-08-26 05:02:32.205][biodb::testThat] Running test function  test.entriesToDataframe.noPeaksDuplication  (" entriesToDataframe() does not duplicate peaks. ").
biodb.INFO [2025-08-26 05:02:32.207][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:32.208][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:32.223][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:32.224][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/massbank_extract_full.tsv".
biodb.DEBUG[2025-08-26 05:02:32.232][private$loadEntries] Creating entries from ids [2]: "AU200952, AU200953".
biodb.DEBUG[2025-08-26 05:02:32.238][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 2 id(s)...
fscache.INFO [2025-08-26 05:02:32.247][cch$loadContents] Load 2 contents, from /home/biocbuild/.cache/R/biodb/mass.csv.file-dfbf730b58eaafbaf06c9de150485948.
fscache.DEBUG[2025-08-26 05:02:32.258][FUN] Found encoding ISO-8859-2 for file /home/biocbuild/.cache/R/biodb/mass.csv.file-dfbf730b58eaafbaf06c9de150485948/AU200952.tsv.
fscache.DEBUG[2025-08-26 05:02:32.278][FUN] Found encoding ISO-8859-2 for file /home/biocbuild/.cache/R/biodb/mass.csv.file-dfbf730b58eaafbaf06c9de150485948/AU200953.tsv.
biodb.DEBUG[2025-08-26 05:02:32.279][conn$getEntryContent] 2 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:32.281][self$createEntryFromContent] Creating Mass spectra CSV File entries from 2 content(s).
biodb.DEBUG[2025-08-26 05:02:32.283][self$createEntryFromContent] Parsing 2 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:32.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:32.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:32.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:32.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:32.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:32.304][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/massbank_extract_full.tsv".
biodb.DEBUG[2025-08-26 05:02:32.319][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:32.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:32.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:32.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.340][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.350][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:02:32.352][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:32.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:32.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.375][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.375][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.384][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:32.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:32.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:32.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.409][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.409][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.409][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.411][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2025-08-26 05:02:32.421][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:32.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:32.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.447][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.447][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.447][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.447][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.453][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2025-08-26 05:02:32.455][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:32.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:32.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.470][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.470][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.470][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.470][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.470][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.471][self$setField] Set field peak.relative.intensity to column(s) peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:32.477][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:32.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:32.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.488][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.488][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.488][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.488][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.488][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.488][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.494][self$setField] Set field chrom.col.id to column(s) chrom.col.id.
biodb.TRACE[2025-08-26 05:02:32.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:32.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:32.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.510][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.512][self$setField] Set field chrom.rt to column(s) chrom.rt.
biodb.TRACE[2025-08-26 05:02:32.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-26 05:02:32.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-26 05:02:32.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.528][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.534][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:32.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:32.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:32.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.550][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.557][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:02:32.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:32.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:32.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.573][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.575][self$setField] Set field inchi to column(s) inchi.
biodb.TRACE[2025-08-26 05:02:32.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:32.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:32.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.592][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.598][self$setField] Set field inchikey to column(s) inchikey.
biodb.TRACE[2025-08-26 05:02:32.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:32.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.615][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.621][self$setField] Set field cas.id to column(s) cas.id.
biodb.TRACE[2025-08-26 05:02:32.622][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 05:02:32.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 05:02:32.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.637][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.639][self$setField] Set field chebi.id to column(s) chebi.id.
biodb.TRACE[2025-08-26 05:02:32.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 05:02:32.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 05:02:32.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.656][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.662][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:32.664][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:32.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.679][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.686][self$setField] Set field ms.level to column(s) ms.level.
biodb.TRACE[2025-08-26 05:02:32.708][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:32.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:32.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.725][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.727][self$setField] Set field peak.mzexp to column(s) peak.mzexp.
biodb.TRACE[2025-08-26 05:02:32.733][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:32.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:32.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.744][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.751][self$setField] Set field peak.intensity to column(s) peak.intensity.
biodb.TRACE[2025-08-26 05:02:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:32.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:32.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.768][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.774][self$setField] Set field chrom.rt.unit to column(s) chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:32.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:32.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.792][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.799][self$setField] Set field peak.formula to column(s) peak.formula.
biodb.TRACE[2025-08-26 05:02:32.805][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:32.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:32.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.820][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.823][self$setField] Set field msprecannot to column(s) msprecannot.
biodb.TRACE[2025-08-26 05:02:32.829][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:32.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:32.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.840][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.847][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:32.853][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:32.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.864][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.871][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2025-08-26 05:02:32.877][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:32.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:32.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:32.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.892][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.902][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.904][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.910][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.916][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.919][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.925][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.927][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.934][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.936][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.942][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.949][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.951][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.957][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.959][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.965][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.967][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.973][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.975][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.981][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.983][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.989][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.991][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "peak.relative.intensity".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "cas.id".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "chebi.id".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "ms.level".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "peak.mzexp".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "peak.intensity".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "peak.formula".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "msprecannot".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:32.997][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.TRACE[2025-08-26 05:02:32.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:33.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:33.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:33.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:33.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:33.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:33.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:33.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:33.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.053][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:33.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:33.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.064][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:33.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:33.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.080][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.095][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.110][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:33.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:33.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:33.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:33.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:33.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-26 05:02:33.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-26 05:02:33.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:33.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:33.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:33.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:33.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:33.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:33.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:33.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:33.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:33.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:33.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.237][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 05:02:33.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 05:02:33.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 05:02:33.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 05:02:33.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.264][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:33.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:33.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.295][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:33.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:33.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.312][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:33.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:33.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.327][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:33.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:33.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.342][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:33.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:33.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.357][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:33.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:33.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:33.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:33.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:33.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:33.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.392][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:33.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:33.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.407][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:33.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:33.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.420][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:33.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:33.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.439][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:33.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:33.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.461][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:33.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.476][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:33.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:33.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.499][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:33.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:33.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.522][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:33.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:33.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.545][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.559][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.582][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:33.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:33.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.642][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.665][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.702][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.725][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.740][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.763][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:33.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:33.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.786][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:33.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:33.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.809][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:33.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:33.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.834][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.857][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:33.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.872][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:33.881][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:33.883][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:33.884][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:33.894][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:33.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:33.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.907][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.913][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:33.914][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:33.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.923][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.929][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:33.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.938][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:33.939][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:33.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.948][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:33.954][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:33.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.963][ef$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:33.980][ef$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:33.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:33.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:33.994][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:33.995][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.008][ef$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:34.010][ef$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:34.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.019][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.020][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.033][ef$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:34.034][ef$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:34.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.043][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:34.049][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:34.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.057][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.059][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.067][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.073][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.082][private$selectFields] Fields [6]: "peak.mztheo, peak.relative.intensity, peak.intensity, peak.formula, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:34.083][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.089][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.097][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.099][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.108][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.114][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.122][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.124][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.132][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.138][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.147][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.148][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.155][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.161][private$selectFields] Fields [6]: "peak.mztheo, peak.relative.intensity, peak.intensity, peak.formula, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:34.163][private$organizeFieldsByGroups] Fields [6]: "peak.mztheo, peak.relative.intensity, peak.intensity, peak.formula, peak.attr, peak.mz"
biodb.TRACE[2025-08-26 05:02:34.164][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.170][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.179][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.180][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.193][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.195][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.203][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.209][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.217][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.219][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.228][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.233][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.242][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.relative.intensity", "peak.intensity", "peak.formula", "peak.attr", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:34.244][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.259][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.274][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.289][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.299][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.314][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.329][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:34.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.369][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.380][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.395][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:34.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.410][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.425][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.436][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:34.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.481][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:34.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:34.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:34.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:34.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:34.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:34.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:34.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.554][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:34.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:34.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.569][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:34.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:34.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.579][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:34.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:34.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:34.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:34.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:34.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:34.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:34.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:34.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:34.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:34.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:34.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:34.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:34.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:34.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:34.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:34.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:34.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:34.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:34.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:34.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:34.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:34.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:34.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:34.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:34.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:34.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.754][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:34.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:34.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.769][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:34.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.795][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:34.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:34.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:34.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:34.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-26 05:02:34.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-26 05:02:34.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:34.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.881][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:34.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:34.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:34.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:34.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:34.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:34.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:34.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.936][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 05:02:34.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 05:02:34.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 05:02:34.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 05:02:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:34.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:02:34.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.983][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:34.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:34.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:34.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:35.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.014][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:35.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.030][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.062][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:35.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:35.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:35.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.133][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.149][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:35.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:35.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.165][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:35.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:35.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.181][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.208][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:35.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:35.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.224][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.239][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.255][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.270][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:35.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.302][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.317][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.333][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.349][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.364][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.376][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.391][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:35.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:35.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.407][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.439][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.455][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.471][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:35.477][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:35.479][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:35.484][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:35.486][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:35.492][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:35.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.502][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:35.504][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:35.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.517][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.519][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.533][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.535][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.549][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:35.551][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:35.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.560][ef$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:35.566][ef$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:35.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.576][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.582][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.591][ef$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:35.597][ef$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:35.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.606][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.608][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.622][ef$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:35.624][ef$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:35.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.637][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.639][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.669][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.671][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.685][private$selectFields] Fields [5]: "peak.mztheo, peak.relative.intensity, peak.intensity, peak.formula, peak.mz"
biodb.TRACE[2025-08-26 05:02:35.687][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.693][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.701][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.702][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.712][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.717][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.727][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.733][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.743][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.749][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.758][private$selectFields] Fields [5]: "peak.mztheo, peak.relative.intensity, peak.intensity, peak.formula, peak.mz"
biodb.TRACE[2025-08-26 05:02:35.760][private$organizeFieldsByGroups] Fields [5]: "peak.mztheo, peak.relative.intensity, peak.intensity, peak.formula, peak.mz"
biodb.TRACE[2025-08-26 05:02:35.766][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.768][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.781][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.783][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.792][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.798][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.808][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.814][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.823][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.829][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.839][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.relative.intensity", "peak.intensity", "peak.formula", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:35.843][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.856][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:35.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.862][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.868][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.875][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:35.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.881][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.893][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:35.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.899][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.906][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.912][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:35.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.918][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.924][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.930][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:35.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:35.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:35.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:35.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:35.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:35.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:35.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.956][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:35.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.969][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:35.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:35.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:35.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:35.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.981][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:35.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:35.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:35.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:35.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:35.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:36.051][self$createEntryFromContent] Accession numbers: AU200952, AU200953.
biodb.DEBUG[2025-08-26 05:02:36.053][biodb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:36.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:36.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:36.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:36.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:36.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:36.063][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.074][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:36.076][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:36.077][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:36.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:36.080][private$selectFields] Fields [14]: "accession, ms.mode, peak.mztheo, peak.relative.intensity, formula, ms.level, peak.intensity, chrom.rt.unit, peak.formula, msprecannot, ..."
biodb.TRACE[2025-08-26 05:02:36.081][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.083][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.087][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.089][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.093][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.095][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.099][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.100][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.105][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.106][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.110][ef$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.112][ef$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.116][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.118][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.122][ef$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.124][ef$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.129][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.130][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.135][ef$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.136][ef$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.141][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.143][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.147][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.149][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.153][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.155][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.159][ef$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.161][ef$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.165][private$selectFields] Fields [14]: "accession, ms.mode, peak.mztheo, peak.relative.intensity, formula, ms.level, peak.intensity, chrom.rt.unit, peak.formula, msprecannot, ..."
biodb.TRACE[2025-08-26 05:02:36.167][private$organizeFieldsByGroups] Fields [14]: "accession, ms.mode, peak.mztheo, peak.relative.intensity, formula, ms.level, peak.intensity, chrom.rt.unit, peak.formula, msprecannot, ..."
biodb.TRACE[2025-08-26 05:02:36.168][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.174][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.176][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.181][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.182][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.186][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.188][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.192][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.198][ef$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.200][ef$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.204][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.206][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.210][ef$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.211][ef$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.215][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.217][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.221][ef$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.223][ef$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.227][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.229][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.233][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.235][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.246][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.248][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.253][ef$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.255][ef$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.259][private$organizeFieldsByGroups] Groups [2]: "c("accession", "ms.mode", "formula", "ms.level", "chrom.rt.unit", "msprecannot", "msprecmz", "mass.csv.file.id"), list(peaks = c("peak.mztheo", "peak.relative.intensity", "peak.intensity", "peak.formula", "peak.attr", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:36.261][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.278][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.284][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.289][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.295][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.301][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.313][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.319][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.325][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.331][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.337][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.343][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-26 05:02:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.355][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.361][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.387][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.397][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.426][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.433][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.440][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.447][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.484][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.499][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.514][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.563][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.585][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.596][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.611][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.627][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.643][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.674][private$entriesToListOfDataframes] Entry converted to data frame: [4, 14]: [accession, ms.mode, formula, ms.level, chrom.rt.unit, ...] [AU200952, neg, C7H5F3O, 2, s, ...] [AU200952, neg, C7H5F3O, 2, s, ...] [AU200952, neg, C7H5F3O, 2, s, ...] [AU200952, neg, C7H5F3O, 2, s, ...].
biodb.DEBUG[2025-08-26 05:02:36.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:36.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:36.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:36.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:36.690][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:36.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.712][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.723][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:36.729][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:36.731][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:36.732][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:36.738][private$selectFields] Fields [13]: "accession, ms.mode, peak.mztheo, peak.relative.intensity, formula, ms.level, peak.intensity, chrom.rt.unit, peak.formula, msprecannot, ..."
biodb.TRACE[2025-08-26 05:02:36.740][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.746][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.755][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.761][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.770][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.772][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.785][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.787][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.795][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.801][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.810][ef$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.812][ef$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:36.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.825][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.827][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:36.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.836][ef$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.842][ef$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:36.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.851][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.857][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:36.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.867][ef$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.873][ef$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:36.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.882][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.883][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:36.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.892][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.898][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:36.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.907][ef$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.913][ef$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:36.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.922][private$selectFields] Fields [13]: "accession, ms.mode, peak.mztheo, peak.relative.intensity, formula, ms.level, peak.intensity, chrom.rt.unit, peak.formula, msprecannot, ..."
biodb.TRACE[2025-08-26 05:02:36.924][private$organizeFieldsByGroups] Fields [13]: "accession, ms.mode, peak.mztheo, peak.relative.intensity, formula, ms.level, peak.intensity, chrom.rt.unit, peak.formula, msprecannot, ..."
biodb.TRACE[2025-08-26 05:02:36.930][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:36.931][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:36.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.940][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.946][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:36.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.955][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.960][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:36.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.970][ef$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.971][ef$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:36.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.980][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:36.986][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:36.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:36.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:36.995][ef$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.001][ef$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.010][ef$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.012][ef$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.025][ef$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.026][ef$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.035][ef$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.041][ef$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.050][ef$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.052][ef$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.065][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.067][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.076][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.082][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.121][ef$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.123][ef$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.138][private$organizeFieldsByGroups] Groups [2]: "c("accession", "ms.mode", "formula", "ms.level", "chrom.rt.unit", "msprecannot", "msprecmz", "mass.csv.file.id"), list(peaks = c("peak.mztheo", "peak.relative.intensity", "peak.intensity", "peak.formula", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:37.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:37.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:37.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:37.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:37.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.180][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:37.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:37.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.194][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.209][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:37.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.relative.intensity.
biodb.TRACE[2025-08-26 05:02:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.234][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.244][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.intensity.
biodb.TRACE[2025-08-26 05:02:37.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.258][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.268][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.283][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.formula.
biodb.TRACE[2025-08-26 05:02:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.322][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:37.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:37.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:37.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:37.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:37.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:37.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.372][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:37.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:37.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.386][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:37.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:37.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2025-08-26 05:02:37.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2025-08-26 05:02:37.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:37.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:37.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:37.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.450][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.465][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.475][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.level.
biodb.TRACE[2025-08-26 05:02:37.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 05:02:37.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.530][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.545][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.555][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecannot.
biodb.TRACE[2025-08-26 05:02:37.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.570][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.585][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.595][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.610][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.641][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.657][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:37.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.684][private$entriesToListOfDataframes] Entry converted to data frame: [2, 13]: [accession, ms.mode, formula, ms.level, chrom.rt.unit, ...] [AU200953, neg, C7H5F3O, 2, s, ...] [AU200953, neg, C7H5F3O, 2, s, ...].
biodb.DEBUG[2025-08-26 05:02:37.690][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:37.691][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:02:37.708][self$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:37.722][biodb::testThat]
biodb.INFO [2025-08-26 05:02:37.724][biodb::testThat] Running test function  test.entryIdsToDataframe  (" entryIdsToDataframe() works correctly. ").
biodb.INFO [2025-08-26 05:02:37.729][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:37.731][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:37.745][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:37.747][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:37.755][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:37.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:37.772][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:37.778][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:37.780][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:37.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:37.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:37.795][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:37.795][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:37.801][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:37.803][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:37.818][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:37.818][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:37.818][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:37.825][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2025-08-26 05:02:37.826][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2025-08-26 05:02:37.828][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:37.834][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:37.836][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:37.841][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:37.843][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2025-08-26 05:02:37.858][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	80
biodb.DEBUG[2025-08-26 05:02:37.860][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:37.866][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2025-08-26 05:02:37.867][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:37.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:37.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:37.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:37.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:37.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:37.897][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:37.897][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:37.897][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:37.898][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:37.898][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:37.898][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:37.900][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:37.900][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:37.900][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:37.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:37.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:37.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:37.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.947][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:37.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.961][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.972][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:37.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:37.987][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:37.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:37.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.001][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.012][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.026][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.051][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.066][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.106][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.121][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.163][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.180][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.196][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.202][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:38.204][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:38.210][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:38.211][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.217][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.226][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.227][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.236][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.242][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.251][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.252][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.258][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:38.260][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:38.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:38.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:38.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.307][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.322][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.363][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:38.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:38.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:38.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:38.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:38.433][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:38.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.499][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.514][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.555][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.600][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.622][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.659][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.687][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.704][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.709][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.723][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.732][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.735][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:38.736][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:38.738][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:38.739][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.743][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.747][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.753][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.754][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.758][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.760][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.761][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:38.762][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:38.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:38.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:38.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.781][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.792][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.806][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:38.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:38.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:38.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:38.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:38.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:38.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.849][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.867][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.873][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.878][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.884][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.895][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.901][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.907][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.925][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:38.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:38.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.937][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:38.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.943][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:38.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.956][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.962][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.964][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:38.965][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:38.967][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:38.968][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:38.970][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:38.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.974][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:38.975][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:38.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.979][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.980][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:38.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.984][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.986][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:38.987][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:38.988][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:38.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:38.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:38.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:39.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:39.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.007][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.012][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:39.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:39.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:39.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:39.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.029][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:39.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:39.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:39.151][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.DEBUG[2025-08-26 05:02:39.167][self$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:39.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.183][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:39.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.230][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.244][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.246][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:39.247][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:39.253][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:39.254][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.256][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.262][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.270][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.280][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.294][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.296][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.304][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.310][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.328][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.334][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.343][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.348][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.357][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2025-08-26 05:02:39.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.397][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.422][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A1, C3H10N2].
biodb.DEBUG[2025-08-26 05:02:39.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:39.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.441][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.452][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.454][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:39.455][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:39.457][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:39.458][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.460][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.465][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.471][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.477][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.478][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.482][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.484][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.485][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.486][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.492][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.496][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2025-08-26 05:02:39.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.515][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.522][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.534][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A2, C6H12O6].
biodb.DEBUG[2025-08-26 05:02:39.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.541][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.TRACE[2025-08-26 05:02:39.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.554][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.565][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.567][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:39.568][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:39.569][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:39.571][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.572][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.575][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.579][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.591][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.597][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.607][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.612][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.635][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.637][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2025-08-26 05:02:39.639][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.640][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.645][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.651][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2025-08-26 05:02:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.675][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.681][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.688][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A3, C6H8O7].
biodb.DEBUG[2025-08-26 05:02:39.690][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:39.691][self$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:39.696][self$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:39.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:39.706][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.718][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.720][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:39.721][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:39.723][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:39.724][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.726][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.727][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.732][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.733][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.738][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.739][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.740][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.742][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.746][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2025-08-26 05:02:39.748][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.759][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.765][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [80].
biodb.DEBUG[2025-08-26 05:02:39.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:39.774][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.786][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.787][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:39.789][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:39.790][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:39.791][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.793][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.794][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.799][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.800][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.804][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.806][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.807][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.809][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.813][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2025-08-26 05:02:39.814][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.820][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.826][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.832][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [90].
biodb.DEBUG[2025-08-26 05:02:39.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.838][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.846][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.851][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.853][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:39.854][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:39.855][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:39.864][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.866][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.867][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.872][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.874][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.878][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.879][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2025-08-26 05:02:39.881][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.882][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.886][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2025-08-26 05:02:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.893][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.898][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:39.904][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [100;110].
biodb.DEBUG[2025-08-26 05:02:39.905][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:39.907][self$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:02:39.911][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:39.919][biodb::testThat]
biodb.INFO [2025-08-26 05:02:39.921][biodb::testThat] Running test function  test.entryIdsToDataframe.listOfListInput  (" entryIdsToDataframe() handles list of list in input. ").
biodb.INFO [2025-08-26 05:02:39.923][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:39.924][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:39.929][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:39.931][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:39.932][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:39.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:39.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:39.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:39.939][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:39.941][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:39.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:39.948][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:39.948][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:39.950][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:39.952][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:39.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:39.957][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:39.957][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:39.957][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:39.960][self$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:39.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:39.969][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:39.971][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2025-08-26 05:02:39.972][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:39.974][self$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:39.977][self$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:39.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:39.986][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:39.988][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2025-08-26 05:02:39.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:39.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:39.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:39.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:39.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:39.997][private$entriesToListOfDataframes] Converted 0 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:39.998][private$entriesToListOfDataframes] Entry converted to data frame: NULL.
biodb.DEBUG[2025-08-26 05:02:40.000][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:40.001][self$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:02:40.005][private$loadEntries] Creating entries from ids [1]: "A3".
biodb.DEBUG[2025-08-26 05:02:40.006][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 05:02:40.008][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:40.009][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:40.011][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:40.012][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:40.013][private$doGetEntryContentFromDb] Entry id: A3
biodb.DEBUG[2025-08-26 05:02:40.017][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A3	C6H8O7	100
A3	C6H8O7	110
A3	C6H8O7	120
biodb.DEBUG[2025-08-26 05:02:40.019][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:40.020][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:40.022][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:40.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:40.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:40.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:40.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:40.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:40.033][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:40.033][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:40.033][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:40.035][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:40.035][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:40.035][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:40.037][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:40.037][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:40.037][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:40.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.055][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.061][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.067][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.072][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.078][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.092][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.099][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.105][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.110][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.116][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.121][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.127][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.132][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.151][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.162][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.163][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:40.165][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:40.166][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:40.167][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.169][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.173][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.175][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.179][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.180][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.184][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.185][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.187][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:40.188][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:40.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:40.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:40.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.207][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.218][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.230][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:40.271][self$createEntryFromContent] Accession numbers: A3.
biodb.DEBUG[2025-08-26 05:02:40.272][private$loadEntries] Creating entries from ids [2]: "A1, A2".
biodb.DEBUG[2025-08-26 05:02:40.349][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 2 id(s)...
biodb.DEBUG[2025-08-26 05:02:40.350][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:40.352][conn$getEntryContent] 2 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:40.353][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:40.354][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:40.356][private$doGetEntryContentFromDb] Entry id: A1, A2
biodb.DEBUG[2025-08-26 05:02:40.360][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	80
biodb.DEBUG[2025-08-26 05:02:40.362][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:40.363][self$createEntryFromContent] Creating Mass spectra CSV File entries from 2 content(s).
biodb.DEBUG[2025-08-26 05:02:40.365][self$createEntryFromContent] Parsing 2 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:40.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:40.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:40.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:40.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:40.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:40.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.394][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.411][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.417][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.428][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.434][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.439][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.445][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.457][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.469][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.475][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.481][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.492][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.493][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:40.495][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:40.496][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:40.497][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.503][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.504][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.508][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.510][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.515][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.516][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.527][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:40.529][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:40.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:40.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.548][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.559][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.570][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:40.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:40.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:40.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:40.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:40.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:40.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.633][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.647][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.679][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.693][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.703][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.727][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.741][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.751][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.766][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.776][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.790][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.805][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:40.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:40.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.816][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.830][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:40.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.845][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:40.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.855][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:40.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.873][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.874][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:40.875][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:40.881][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:40.882][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.896][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:40.898][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:40.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.906][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.908][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.916][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.922][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:40.935][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:40.936][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:40.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:40.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:40.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.959][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.970][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.981][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:40.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:40.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:40.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:40.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:40.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:41.038][self$createEntryFromContent] Accession numbers: A1, A2.
biodb.DEBUG[2025-08-26 05:02:41.052][self$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:41.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:41.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:41.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:41.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:41.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:41.062][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.068][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.073][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.079][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.084][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.086][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:41.087][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.089][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.090][private$selectFields] Fields [4]: "accession, formula, msprecmz, mass.csv.file.id"
biodb.TRACE[2025-08-26 05:02:41.091][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.093][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.098][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.102][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.104][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.114][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.120][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.122][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.126][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.127][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.132][private$selectFields] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:41.133][private$organizeFieldsByGroups] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:41.134][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.136][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.140][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.142][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.146][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.147][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.151][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.214][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A3, C6H8O7, 100;110;120].
biodb.DEBUG[2025-08-26 05:02:41.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:41.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:41.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:41.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:41.221][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:41.224][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.230][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.236][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.242][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.248][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.249][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:41.250][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.252][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.253][private$selectFields] Fields [4]: "accession, formula, msprecmz, mass.csv.file.id"
biodb.TRACE[2025-08-26 05:02:41.255][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.257][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.260][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.261][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.263][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.267][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.269][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.273][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.279][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.280][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.284][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.286][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.290][private$selectFields] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:41.292][private$organizeFieldsByGroups] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:41.293][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.295][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.297][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.299][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.300][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.304][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.306][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.310][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:41.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.340][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.352][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.358][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.366][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A1, C3H10N2, 80].
biodb.TRACE[2025-08-26 05:02:41.368][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.374][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.380][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.393][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.399][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.401][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:41.403][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.404][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.405][private$selectFields] Fields [4]: "accession, formula, msprecmz, mass.csv.file.id"
biodb.TRACE[2025-08-26 05:02:41.407][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.413][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.418][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.420][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.424][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.429][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.430][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.434][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.436][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.440][private$selectFields] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:41.441][private$organizeFieldsByGroups] Fields [3]: "accession, formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:41.443][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.444][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.448][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.450][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.454][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.455][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.459][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:41.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.479][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.485][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.496][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.502][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.508][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.515][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A2, C6H12O6, 90].
biodb.DEBUG[2025-08-26 05:02:41.517][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.TRACE[2025-08-26 05:02:41.520][private$entriesToListOfDataframes] Entry converted to data frame: [1, 3]: [accession, formula, msprecmz] [A1|A2, C3H10N2|C6H12O6, 80|90].
biodb.DEBUG[2025-08-26 05:02:41.521][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:41.522][self$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:02:41.527][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:41.533][biodb::testThat]
biodb.INFO [2025-08-26 05:02:41.534][biodb::testThat] Running test function  test.addColsToDataframe  (" addColsToDataframe() works correctly. ").
biodb.INFO [2025-08-26 05:02:41.536][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:41.537][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:41.543][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:41.544][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:41.548][private$loadEntries] Creating entries from ids [2]: "A2, A3".
biodb.DEBUG[2025-08-26 05:02:41.550][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 2 id(s)...
biodb.DEBUG[2025-08-26 05:02:41.551][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:41.553][conn$getEntryContent] 2 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:41.554][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:41.556][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:41.557][private$doGetEntryContentFromDb] Entry id: A2, A3
biodb.DEBUG[2025-08-26 05:02:41.559][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:41.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:41.566][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:41.568][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:41.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:41.575][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:41.575][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:41.577][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:41.579][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:41.585][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:41.585][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:41.585][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:41.590][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A2	C6H12O6	90
biodb.DEBUG[2025-08-26 05:02:41.591][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:41.593][self$createEntryFromContent] Creating Mass spectra CSV File entries from 2 content(s).
biodb.DEBUG[2025-08-26 05:02:41.595][self$createEntryFromContent] Parsing 2 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:41.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:41.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:41.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:41.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:41.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:41.606][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:41.606][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:41.606][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:41.608][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:41.608][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:41.608][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:41.609][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:41.609][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:41.609][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:41.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.631][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.636][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.642][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.648][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.653][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.659][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.664][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.686][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.692][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:41.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:41.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.698][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:41.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:41.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.704][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:41.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:41.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.710][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.722][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.733][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.734][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:41.736][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.737][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:41.739][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.740][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.744][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.746][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.750][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.751][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.755][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.757][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.758][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:41.760][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:41.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:41.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:41.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.778][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.784][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:41.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:41.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.789][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:41.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:41.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.801][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:41.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:41.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:41.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:41.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:41.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:41.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:41.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:41.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.858][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.863][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.869][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.874][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.879][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.885][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.895][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.901][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:41.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:41.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.917][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:41.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:41.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.923][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:41.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:41.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.929][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:41.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.954][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.956][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:41.957][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:41.958][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:41.960][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:41.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:41.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:41.967][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:41.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.971][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.972][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:41.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.976][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.978][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:41.979][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:41.980][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:41.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:41.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:41.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:41.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:41.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:41.999][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.005][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:42.086][self$createEntryFromContent] Accession numbers: A2, A3.
biodb.DEBUG[2025-08-26 05:02:42.093][self$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:02:42.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:42.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:42.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:42.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:42.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:42.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.118][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.124][private$selectFields] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.125][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:42.126][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:42.128][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:42.129][private$selectFields] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.136][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.138][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.142][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.147][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.149][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.153][private$selectFields] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.154][private$organizeFieldsByGroups] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.156][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.157][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.161][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.163][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.167][private$organizeFieldsByGroups] Groups [2]: "c("formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.186][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.191][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.204][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [formula, msprecmz] [C6H12O6, 90].
biodb.DEBUG[2025-08-26 05:02:42.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:42.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:42.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:42.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:42.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.229][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.235][private$selectFields] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.236][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:42.238][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:02:42.239][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:42.240][private$selectFields] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.242][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.243][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.246][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.247][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.249][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.253][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.254][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.259][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.260][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.264][private$selectFields] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.266][private$organizeFieldsByGroups] Fields [2]: "formula, msprecmz"
biodb.TRACE[2025-08-26 05:02:42.267][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.268][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.280][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.281][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.286][private$organizeFieldsByGroups] Groups [2]: "c("formula", "msprecmz"), list()"
biodb.TRACE[2025-08-26 05:02:42.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.304][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.322][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [formula, msprecmz] [C6H8O7, 100;110].
biodb.DEBUG[2025-08-26 05:02:42.323][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:02:42.324][self$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:02:42.329][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:42.334][biodb::testThat]
biodb.INFO [2025-08-26 05:02:42.335][biodb::testThat] Running test function  test.entriesToSingleFieldValues  (" entriesToSingleFieldValues() works correctly. ").
biodb.INFO [2025-08-26 05:02:42.336][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:42.338][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:42.343][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:42.344][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:42.346][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:42.353][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:42.355][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:42.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:42.367][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:42.367][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:42.369][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:42.371][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:42.377][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:42.377][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:42.377][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:42.383][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2025-08-26 05:02:42.384][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2025-08-26 05:02:42.386][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:42.388][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:42.390][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:42.391][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:42.393][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2025-08-26 05:02:42.399][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	100
biodb.DEBUG[2025-08-26 05:02:42.401][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:42.403][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2025-08-26 05:02:42.405][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:42.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:42.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:42.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:42.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:42.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:42.418][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:42.418][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:42.418][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:42.420][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:42.420][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:42.420][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:42.422][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:42.422][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:42.422][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:42.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.443][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.449][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.461][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.474][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.486][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.491][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.497][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.503][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:42.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:42.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:42.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:42.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:42.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:42.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.538][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.555][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.560][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:42.562][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:42.563][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:42.564][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:42.566][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.567][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.571][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.577][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.578][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.583][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:42.584][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:42.585][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:42.587][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:42.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:42.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.606][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.612][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.628][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:42.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:42.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:42.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:42.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:42.656][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.671][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.677][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.682][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.699][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.711][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.722][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.727][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.733][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:42.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:42.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.756][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:42.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:42.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:42.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.778][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.792][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:42.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.812][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.829][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:42.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.847][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:42.848][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:42.858][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:42.859][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:42.869][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.870][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:42.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.883][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:42.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:42.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.895][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.901][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.909][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:42.911][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:42.912][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:42.918][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:42.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:42.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:42.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:42.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.958][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.968][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.982][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:42.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:42.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:42.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:42.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.007][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:43.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:43.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:43.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:43.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:43.071][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:43.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.137][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.145][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.155][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.164][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.187][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.203][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.210][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:43.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:43.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:43.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:43.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.239][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.251][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:43.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:43.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:43.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:43.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:43.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.312][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.322][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:43.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.328][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:43.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:43.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.333][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:43.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:43.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.339][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:43.340][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:43.342][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:43.343][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:43.345][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.346][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.350][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.352][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.356][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.357][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.362][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:43.363][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:43.364][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:43.366][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:43.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:43.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:43.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:43.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:43.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:43.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.385][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:43.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.391][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.408][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:43.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:43.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:43.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:43.539][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.TRACE[2025-08-26 05:02:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.572][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.624][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:43.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:43.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:43.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.116][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.261][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.358][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.449][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.464][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.528][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.550][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.560][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.586][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.609][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.623][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.645][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.659][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:44.681][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:44.706][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:44.719][biodb::testThat]
biodb.INFO [2025-08-26 05:02:44.729][biodb::testThat] Running test function  test.entryIdsToSingleFieldValues  (" entryIdsToSingleFieldValues() works correctly. ").
biodb.INFO [2025-08-26 05:02:44.730][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:44.732][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:44.754][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:44.756][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:44.770][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:44.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:44.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:44.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:44.785][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:44.787][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:02:44.797][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:44.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:44.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:44.811][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:44.811][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:44.821][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:44.823][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:44.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:44.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:44.845][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:44.845][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:44.845][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:44.871][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2025-08-26 05:02:44.881][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2025-08-26 05:02:44.883][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:44.884][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:44.894][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:44.895][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:44.905][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2025-08-26 05:02:44.920][private$doGetEntryContentFromDb] Content of first entry: accession	formula	msprecmz
A1	C3H10N2	100
biodb.DEBUG[2025-08-26 05:02:44.929][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:44.931][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2025-08-26 05:02:44.941][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:44.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:44.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:44.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:44.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:44.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:44.978][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:44.978][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:44.978][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:44.980][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:44.980][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:44.980][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:44.990][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:44.990][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:02:44.990][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:44.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:45.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:45.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:45.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:45.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.074][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.097][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.135][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.182][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:45.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:45.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.228][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:45.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:45.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.243][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:45.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:45.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.292][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:45.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:45.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:45.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:45.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.330][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.367][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:45.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:45.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.390][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.413][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:45.415][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:45.416][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:45.426][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:45.428][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.437][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.450][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:45.452][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:45.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.473][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.475][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.488][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:45.497][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:45.499][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:45.509][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:45.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:45.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:45.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:45.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.571][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.593][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.643][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:45.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:45.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:45.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:45.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:45.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:45.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:45.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:45.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:45.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:45.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:45.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:45.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:45.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.859][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:45.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.881][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.895][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.917][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.931][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:45.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:45.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.967][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:45.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:45.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:45.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:45.989][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:45.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:46.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:46.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.025][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:46.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:46.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:46.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:46.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:46.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:46.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.112][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:46.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:46.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.134][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:46.135][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:46.145][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:46.146][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:46.148][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.170][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:46.171][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:46.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.184][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.193][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.206][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:46.207][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:46.217][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:46.218][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:46.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:46.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:46.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.283][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.319][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:46.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:46.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.356][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:46.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:46.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:46.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:46.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:46.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:46.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:46.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:46.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:46.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.565][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.579][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.601][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.615][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.637][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:46.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.688][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.710][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.724][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:46.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.746][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:46.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:46.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.760][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:46.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.787][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.816][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:46.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.834][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:46.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:46.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.852][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:46.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.882][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:46.884][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:46.897][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:46.899][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:46.900][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:46.914][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:46.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.930][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:46.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:46.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.948][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.961][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:46.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:46.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:46.977][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:46.979][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:46.980][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:46.990][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:46.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:47.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.049][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.086][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:47.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.122][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:47.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:47.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:47.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:47.376][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.TRACE[2025-08-26 05:02:47.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.458][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.577][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.613][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.649][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.700][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.747][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.805][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.878][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:47.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:47.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.903][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.926][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.949][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.963][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:47.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:47.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:47.985][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.021][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.035][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.058][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.072][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:48.096][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:48.118][biodb::testThat]
biodb.INFO [2025-08-26 05:02:48.120][biodb::testThat] Running test function  test.entriesFieldToVctOrLst  (" entriesFieldToVctOrLst() works correctly. ").
biodb.INFO [2025-08-26 05:02:48.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:48.131][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:48.144][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:48.154][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2025-08-26 05:02:48.156][private$loadEntries] Creating entries from ids [1]: "A1".
biodb.DEBUG[2025-08-26 05:02:48.166][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 05:02:48.167][conn$getEntryContent] 0 Mass spectra CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:48.177][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2025-08-26 05:02:48.178][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:48.180][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:48.189][private$doGetEntryContentFromDb] Entry id: A1
biodb.DEBUG[2025-08-26 05:02:48.191][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:02:48.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:48.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:48.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:48.215][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:48.225][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2025-08-26 05:02:48.226][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:48.249][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:48.249][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:48.261][private$doGetEntryContentFromDb] Content of first entry: accession	msprecmz
A1	80
A1	90
A1	100
A1	110
A1	120
biodb.DEBUG[2025-08-26 05:02:48.263][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:48.273][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:48.274][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2025-08-26 05:02:48.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:48.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:48.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:48.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:48.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:48.312][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:48.312][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2025-08-26 05:02:48.323][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:02:48.323][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2025-08-26 05:02:48.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:48.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:48.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:48.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.369][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.383][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.420][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.443][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.465][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:48.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:48.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.503][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:48.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:48.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.526][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.549][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:48.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:48.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:48.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.587][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2025-08-26 05:02:48.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2025-08-26 05:02:48.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.611][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.633][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:48.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.647][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:48.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:48.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:48.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:48.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.684][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:48.693][private$selectFields] Fields type: peak
biodb.TRACE[2025-08-26 05:02:48.695][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:48.696][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2025-08-26 05:02:48.706][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:48.708][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:48.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.720][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.730][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.743][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:48.753][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:48.754][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:48.756][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:48.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:48.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:48.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:48.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 05:02:48.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:48.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 05:02:48.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.866][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:48.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.897][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:48.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:48.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.916][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:48.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:48.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:48.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.976][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:48.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2025-08-26 05:02:48.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:48.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:48.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:49.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:49.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:49.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:49.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:49.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:49.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:49.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:49.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:49.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:49.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:49.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:49.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:49.155][self$createEntryFromContent] Accession numbers: A1.
biodb.TRACE[2025-08-26 05:02:49.170][self$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.172][self$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.185][self$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.187][self$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.203][self$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.217][self$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.219][self$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.220][self$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.234][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.251][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.282][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.329][self$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.331][self$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.332][self$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.346][self$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.362][self$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.364][self$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.377][self$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.379][self$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.380][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.411][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:49.440][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2025-08-26 05:02:49.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:49.476][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2025-08-26 05:02:49.505][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:49.507][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:49.508][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:49.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:49.523][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:49.555][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:49.570][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:49.587][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:49.600][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:49.602][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:49.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.620][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:49.633][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:49.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.651][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:49.665][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:49.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.683][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:49.684][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:49.698][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:49.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.715][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:49.729][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:49.731][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:49.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.760][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:49.762][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:49.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.780][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:49.794][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:49.795][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:49.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.825][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:49.857][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:49.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.875][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:49.876][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:49.890][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:49.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.908][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:49.921][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:49.923][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:49.924][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:49.938][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:49.939][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:49.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.969][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:49.971][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:49.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:49.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:49.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:49.988][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:50.002][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:50.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.020][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:50.033][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:50.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.051][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:50.064][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:50.066][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:50.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.084][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:50.097][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:50.165][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:50.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.175][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:50.176][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:50.190][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:50.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.208][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:50.222][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.224][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:02:50.237][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.239][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:50.240][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.254][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.255][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.256][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.270][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:50.271][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:50.285][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.286][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:50.288][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:50.301][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.303][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.304][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:50.304][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:50.304][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:50.304][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:50.304][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:50.318][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:50.319][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.334][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:50.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.349][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.350][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.351][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.361][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:50.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:50.364][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.374][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.375][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:50.386][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.388][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:50.397][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.399][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:50.400][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.410][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.411][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.420][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.422][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:50.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:50.433][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.435][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:50.436][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:50.446][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.447][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.457][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:50.457][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:50.457][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:50.457][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:50.457][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:50.458][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:50.460][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.469][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:50.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.482][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.483][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.492][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.494][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:50.495][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:50.505][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.507][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.516][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:50.519][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.529][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:02:50.531][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.532][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:50.542][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.553][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.554][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.556][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:50.566][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:50.567][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.577][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:50.578][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:50.580][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.589][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.591][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:50.602][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.603][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.613][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:50.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.625][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.627][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.636][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:50.638][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:50.639][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.649][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.651][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:50.662][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.663][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:50.673][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.674][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:50.676][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.686][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.687][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.697][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.698][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:50.700][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:50.709][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.711][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:50.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:50.722][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.723][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:50.733][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.757][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:50.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.769][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:50.771][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:50.772][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:50.782][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:50.783][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.793][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:50.794][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:50.796][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:50.806][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:50.808][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:50.817][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.819][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[2025-08-26 05:02:50.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:50.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:50.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:50.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:50.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:50.932][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:50.934][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:50.936][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:50.938][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:50.940][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:50.941][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:50.943][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:50.945][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:50.947][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:50.949][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:50.951][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:50.953][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:50.955][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:50.957][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:50.959][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:50.960][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:50.962][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:50.964][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:50.966][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:50.968][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:50.970][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:50.972][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:50.974][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:50.976][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:50.978][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:50.980][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:50.981][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:50.983][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:50.985][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:50.987][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:50.989][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:50.991][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:50.993][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:50.995][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:50.997][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:50.999][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:51.001][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:51.003][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:51.005][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:51.007][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:51.009][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:51.011][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:51.013][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:51.015][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:51.017][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:51.019][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:51.021][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:51.023][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:51.032][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:51.034][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:51.036][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:51.038][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:51.040][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:51.042][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:51.043][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:51.045][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:51.047][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:51.049][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:51.051][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:51.053][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:51.055][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:51.057][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:51.059][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:51.061][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:51.063][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:51.064][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:51.066][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:51.068][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:51.070][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:51.072][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:51.074][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:51.076][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:51.086][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:51.092][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:51.095][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:51.105][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:51.107][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:51.118][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:51.120][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:51.126][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:51.133][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:51.135][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:51.141][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:51.144][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:51.150][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:51.152][biodb::testContext]
biodb.INFO [2025-08-26 05:02:51.158][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:51.159][biodb::testContext] Test context - Test BiodbDbInfo.
biodb.INFO [2025-08-26 05:02:51.160][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:51.166][biodb::testContext]
biodb.INFO [2025-08-26 05:02:51.168][biodb::testThat]
biodb.INFO [2025-08-26 05:02:51.173][biodb::testThat] Running test function  test.namedProp  (" Named properties work correctly. ").
biodb.INFO [2025-08-26 05:02:51.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:51.176][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:51.184][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.189][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.191][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.196][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:51.198][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.199][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.204][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.206][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.207][self$setPropertyValue] Setting property "entry.content.type" to "txt".
biodb.DEBUG[2025-08-26 05:02:51.212][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:51.214][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.215][self$setPropertyValue] Setting property "name" to "MyDb".
biodb.DEBUG[2025-08-26 05:02:51.221][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:51.222][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.224][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.229][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.231][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:51.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.238][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:51.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.253][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.254][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:51.255][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:51.261][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.263][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.264][self$setPropertyValue] Setting property "urls" to "http://some/url/that/points/somewhere".
biodb.DEBUG[2025-08-26 05:02:51.270][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:51.271][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.INFO [2025-08-26 05:02:51.285][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:51.287][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:51.288][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:51.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:51.295][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:51.311][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:51.318][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:51.327][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:51.328][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:51.334][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:51.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.343][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:51.348][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:51.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.358][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:51.359][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:51.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.372][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:51.374][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:51.375][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:51.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.389][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:51.390][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:51.392][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:51.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.405][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:51.407][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:51.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.416][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:51.422][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:51.423][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:51.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.436][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:51.438][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:51.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.447][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:51.453][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:51.454][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:51.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.479][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:51.484][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:51.486][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:51.487][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:51.493][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:51.495][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:51.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.504][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:51.509][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:51.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.519][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:51.520][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:51.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.533][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:51.535][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:51.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.543][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[2025-08-26 05:02:51.544][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:51.550][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:51.551][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:51.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.564][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:51.566][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:51.582][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:51.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.589][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[2025-08-26 05:02:51.591][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:51.592][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:51.598][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:51.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:51.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:51.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:51.611][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:51.622][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.624][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:02:51.633][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.635][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:51.636][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.646][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.647][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.657][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.658][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:51.660][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:51.669][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.671][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:51.672][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:51.682][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.683][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.693][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:51.693][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:51.693][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:51.693][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:51.693][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:51.694][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:51.696][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.707][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:51.708][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.718][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.719][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.728][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.730][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:51.731][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:51.741][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.742][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.744][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:51.755][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.756][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:51.766][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.767][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:51.777][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.778][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.779][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.789][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.791][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:51.792][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:51.802][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.804][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:51.814][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:51.815][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.825][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.826][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:51.826][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:51.826][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:51.826][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:51.826][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:51.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:51.837][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.839][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.840][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:51.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.852][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.862][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.864][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:51.873][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:51.875][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.876][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.886][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:51.897][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.898][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:02:51.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:51.911][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.920][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.922][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.923][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.933][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:51.935][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:51.936][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:51.946][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:51.947][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:51.957][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.958][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:51.960][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:51.969][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:51.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.982][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:51.983][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:51.993][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:51.994][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:51.996][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:52.005][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:52.007][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:52.008][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:52.018][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:52.020][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:52.031][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:52.040][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:52.042][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:52.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:52.053][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:52.055][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:52.065][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:52.066][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:52.068][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:52.078][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:52.079][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:52.089][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:52.091][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:52.100][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:52.102][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:52.104][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:52.114][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:52.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:52.125][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:52.127][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:52.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:52.138][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:52.140][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:52.162][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:52.164][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:52.182][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:52.183][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:52.193][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:52.195][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:52.196][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.289][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[2025-08-26 05:02:52.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.326][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[2025-08-26 05:02:52.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:52.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.506][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[2025-08-26 05:02:52.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:52.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:52.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:52.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:52.520][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[2025-08-26 05:02:52.530][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:52.532][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:52.542][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:52.544][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:52.554][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:52.564][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:52.567][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:52.577][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:52.579][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:52.589][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:52.591][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:52.601][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:52.603][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:52.613][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:52.616][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:52.626][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:52.628][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:52.638][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:52.640][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:52.650][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:52.652][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:52.663][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:52.673][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:52.675][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:52.685][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:52.687][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:52.697][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:52.699][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:52.710][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:52.712][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:52.722][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:52.724][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:52.734][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:52.745][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:52.747][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:52.757][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:52.759][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:52.770][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:52.772][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:52.782][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:52.784][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:52.795][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:52.805][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:52.807][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:52.817][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:52.819][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:52.830][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:52.832][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:52.842][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:52.844][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:52.854][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:52.888][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:52.902][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:52.904][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:52.918][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:52.933][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:52.935][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:52.949][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:52.952][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:52.966][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:52.968][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:52.983][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:52.997][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:52.999][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:53.013][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:53.015][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:53.030][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:53.032][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:53.046][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:53.048][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:53.061][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:53.064][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:53.078][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:53.080][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:53.090][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:53.100][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:53.103][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:53.113][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:53.115][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:53.125][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:53.127][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:53.137][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:53.139][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:53.149][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:53.151][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:53.161][biodb::testContext]
biodb.INFO [2025-08-26 05:02:53.162][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:53.163][biodb::testContext] Test context - Test BiodbEntry.
biodb.INFO [2025-08-26 05:02:53.173][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:53.174][biodb::testContext]
biodb.INFO [2025-08-26 05:02:53.176][biodb::testThat]
biodb.INFO [2025-08-26 05:02:53.185][biodb::testThat] Running test function  test.getFieldValue  (" getFieldValue() works correctly. ").
biodb.INFO [2025-08-26 05:02:53.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:53.188][biodb::testThat]
biodb.TRACE[2025-08-26 05:02:53.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.379][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.415][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.437][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.461][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.498][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:53.534][biodb::testThat]
biodb.INFO [2025-08-26 05:02:53.536][biodb::testThat] Running test function  test.getFieldsAsDataframe  (" getFieldsAsDataframe() works correctly. ").
biodb.INFO [2025-08-26 05:02:53.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:53.547][biodb::testThat]
biodb.TRACE[2025-08-26 05:02:53.570][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.593][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.607][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:53.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:53.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.631][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.677][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:53.679][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:53.680][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:53.690][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:53.692][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:53.701][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:53.703][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2025-08-26 05:02:53.713][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2025-08-26 05:02:53.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.749][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.763][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.786][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:53.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:53.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.809][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.823][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:53.833][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:53.834][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:53.836][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:53.845][private$selectFields] Fields [1]: "accession"
biodb.TRACE[2025-08-26 05:02:53.847][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.869][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.871][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.884][private$selectFields] Fields [1]: "accession"
biodb.TRACE[2025-08-26 05:02:53.894][private$organizeFieldsByGroups] Fields [1]: "accession"
biodb.TRACE[2025-08-26 05:02:53.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.905][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.918][private$organizeFieldsByGroups] Groups [2]: "accession, list()"
biodb.TRACE[2025-08-26 05:02:53.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:53.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:53.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.971][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:53.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:53.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:53.988][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:53.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.003][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.018][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:54.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:02:54.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.033][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.059][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.100][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:54.105][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:54.107][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:54.113][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:54.114][private$selectFields] Fields [3]: "accession, peak.mztheo, peak.mz"
biodb.TRACE[2025-08-26 05:02:54.116][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.122][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.131][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.137][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.146][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.148][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.155][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.161][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.163][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.172][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.178][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.187][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.193][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.202][private$selectFields] Fields [3]: "accession, peak.mztheo, peak.mz"
biodb.TRACE[2025-08-26 05:02:54.204][private$organizeFieldsByGroups] Fields [3]: "accession, peak.mztheo, peak.mz"
biodb.TRACE[2025-08-26 05:02:54.210][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.211][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.224][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.226][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.235][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.241][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.250][private$organizeFieldsByGroups] Groups [2]: "accession, list(peaks = c("peak.mztheo", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:54.252][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.267][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.298][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.314][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.324][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.340][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.409][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.434][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:02:54.435][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:02:54.441][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:02:54.443][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:02:54.444][private$selectFields] Fields [3]: "accession, peak.mztheo, peak.mz"
biodb.TRACE[2025-08-26 05:02:54.450][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.460][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.466][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.474][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.476][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.489][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.491][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.500][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.505][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.514][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.516][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.529][private$selectFields] Fields [3]: "accession, peak.mztheo, peak.mz"
biodb.TRACE[2025-08-26 05:02:54.530][private$organizeFieldsByGroups] Fields [3]: "accession, peak.mztheo, peak.mz"
biodb.TRACE[2025-08-26 05:02:54.532][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.538][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.547][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.548][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.561][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.563][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.571][private$organizeFieldsByGroups] Groups [2]: "accession, list(peaks = c("peak.mztheo", "peak.mz"))"
biodb.TRACE[2025-08-26 05:02:54.577][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.588][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.603][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:02:54.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.617][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.628][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.638][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:02:54.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:54.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:54.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:54.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:54.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:54.669][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:54.670][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:54.671][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:54.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:54.674][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:54.695][biodb::testContext]
biodb.INFO [2025-08-26 05:02:54.696][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:54.699][biodb::testContext] Test context - Test chebi.ex connector.
biodb.INFO [2025-08-26 05:02:54.701][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:54.702][biodb::testContext]
biodb.INFO [2025-08-26 05:02:54.711][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:54.731][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:54.744][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:54.746][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:54.748][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:54.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.762][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:54.764][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:54.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.794][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:54.796][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:54.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.806][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:54.808][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:54.810][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:54.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.819][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:54.825][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:54.827][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:54.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.835][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:54.837][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:54.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.847][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:54.848][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:54.854][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:54.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.864][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:54.869][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:54.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.878][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[2025-08-26 05:02:54.879][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:54.885][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:54.887][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:54.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.896][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:54.902][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:54.903][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:54.909][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:54.911][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:54.917][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:54.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.926][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:54.928][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:54.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.947][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:54.948][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:54.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.966][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:54.968][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:54.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.982][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:54.984][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:54.989][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:54.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:54.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:54.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:54.999][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:55.005][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:55.022][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:55.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.027][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:55.033][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:55.035][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:55.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.043][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[2025-08-26 05:02:55.049][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:55.052][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.058][self$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[2025-08-26 05:02:55.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.065][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:55.067][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.073][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.074][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.076][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.082][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:55.083][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:55.089][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.091][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:55.096][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:55.098][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.100][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.106][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:55.106][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:55.106][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:55.106][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:55.106][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:55.107][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:55.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.116][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:55.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.120][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.121][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.123][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:55.124][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:55.126][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.127][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.129][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:55.132][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.133][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:55.135][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.136][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:55.138][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.139][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.141][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.142][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.143][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:55.145][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:55.146][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.148][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:55.149][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:55.151][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.152][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.154][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:55.154][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:55.154][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:55.154][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:55.154][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:55.155][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:55.157][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.158][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.159][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:55.161][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.162][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.164][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.165][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.167][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:55.168][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:55.169][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.171][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.173][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:55.175][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.177][self$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[2025-08-26 05:02:55.178][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.180][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:55.181][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.183][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.184][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.186][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.187][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:55.189][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:55.190][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.192][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:55.193][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:55.202][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.203][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.205][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.206][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:55.207][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.210][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:55.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.214][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.216][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.217][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:55.219][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:55.220][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.222][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.224][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:55.227][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.229][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:55.230][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:55.234][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.235][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.237][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.241][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.244][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:55.246][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:55.247][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.249][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:55.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:55.252][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.254][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.255][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.257][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:55.258][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.260][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.261][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:55.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.265][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.267][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.269][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:55.270][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:55.272][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.273][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:55.275][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:55.276][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.306][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[2025-08-26 05:02:55.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.312][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[2025-08-26 05:02:55.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.326][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[2025-08-26 05:02:55.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.332][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[2025-08-26 05:02:55.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.359][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[2025-08-26 05:02:55.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.372][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[2025-08-26 05:02:55.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:55.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:55.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:55.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:55.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:55.387][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[2025-08-26 05:02:55.388][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:55.390][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:55.393][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:55.395][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:55.397][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:55.399][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:55.401][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:55.403][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:55.405][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:55.408][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:55.410][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:55.412][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:55.415][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:55.417][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:55.419][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:55.422][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:55.424][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:55.426][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:55.428][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:55.431][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:55.433][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:55.442][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:55.444][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:55.446][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:55.449][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:55.451][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:55.453][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:55.456][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:55.458][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:55.460][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:55.462][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:55.464][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:55.466][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:55.468][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:55.470][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:55.472][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:55.474][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:55.476][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:55.479][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:55.481][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:55.483][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:55.485][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:55.487][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:55.489][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:55.491][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:55.493][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:55.495][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:55.497][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:55.500][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:55.502][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:55.504][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:55.506][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:55.508][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:55.510][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:55.512][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:55.514][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:55.517][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:55.519][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:55.521][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:55.523][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:55.525][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:55.527][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:55.530][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:55.532][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:55.534][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:55.536][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:55.538][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:55.540][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:55.542][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:55.544][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:55.546][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:55.548][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:55.550][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:55.552][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:55.554][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:55.556][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:55.558][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:55.560][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:55.562][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:55.564][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:55.566][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:55.568][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:55.570][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:55.572][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:55.575][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:55.581][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_ex.yml".
biodb.DEBUG[2025-08-26 05:02:55.610][self$getDbsInfo()$define] Define connector chebi.ex.
biodb.DEBUG[2025-08-26 05:02:55.617][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.619][self$setPropertyValue] Setting property "description" to "An example connector for ChEBI.".
biodb.DEBUG[2025-08-26 05:02:55.620][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.626][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:55.627][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.633][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.635][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.640][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-26 05:02:55.642][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 05:02:55.644][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:55.649][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.651][self$setPropertyValue] Setting property "name" to "ChEBI example connector".
biodb.DEBUG[2025-08-26 05:02:55.657][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:55.658][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:55.660][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:55.666][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:55.666][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:55.666][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:55.668][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 05:02:55.673][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.676][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:55.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:55.682][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:55.683][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:55.685][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:55.685][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:02:55.686][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:55.688][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:55.689][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:55.691][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:02:55.691][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:02:55.700][self$getEntryFields()$define] Define field chebi.ex.id.
biodb.DEBUG[2025-08-26 05:02:55.786][super$initialize] Initialize connector chebi.ex.
biodb.DEBUG[2025-08-26 05:02:55.861][biodb$getFactory()$createConn] Creating new connector chebi.ex for database class chebi.ex .
biodb.INFO [2025-08-26 05:02:55.870][biodb::testThat]
biodb.INFO [2025-08-26 05:02:55.871][biodb::testThat] Running test function  test_chebiex_getEntryPageUrl  (" getEntryPageUrl() works. ").
biodb.INFO [2025-08-26 05:02:55.873][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:55.874][biodb::testThat]
biodb.INFO [2025-08-26 05:02:56.191][biodb::testThat]
biodb.INFO [2025-08-26 05:02:56.193][biodb::testThat] Running test function  test_chebiex_getEntryImageUrl  (" getEntryImageUrl() works. ").
biodb.INFO [2025-08-26 05:02:56.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:56.196][biodb::testThat]
biodb.INFO [2025-08-26 05:02:56.255][biodb::testThat]
biodb.INFO [2025-08-26 05:02:56.257][biodb::testThat] Running test function  test_getEntry  (" We can retrieve entries. ").
biodb.INFO [2025-08-26 05:02:56.259][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:56.261][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:56.264][private$loadEntries] Creating entries from ids [1]: "17001".
biodb.DEBUG[2025-08-26 05:02:56.316][conn$getEntryContent] Get ChEBI example connector entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:02:56.337][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-26 05:02:56.402][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649/17001.xml.
biodb.DEBUG[2025-08-26 05:02:56.441][conn$getEntryContent] 1 ChEBI example connector entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:56.443][self$createEntryFromContent] Creating ChEBI example connector entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:56.445][self$createEntryFromContent] Parsing 1 ChEBI example connector entries.
biodb.DEBUG[2025-08-26 05:02:56.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:56.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:56.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:56.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:56.464][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:02:56.509][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.511][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.540][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:56.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:56.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:56.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:56.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.557][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:56.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:56.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:56.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:56.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.570][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:56.572][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:56.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:56.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:56.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.585][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:56.587][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:56.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.592][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:56.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:56.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.599][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:56.601][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:56.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:56.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:56.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.613][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:56.615][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:56.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:56.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:56.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.627][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:56.628][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:56.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.634][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:56.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:56.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:56.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:56.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:56.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:56.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:56.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:56.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:56.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:56.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:56.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:56.720][self$createEntryFromContent] Accession numbers: 17001.
biodb.DEBUG[2025-08-26 05:02:56.724][private$loadEntries] Creating entries from ids [1]: "17001".
biodb.DEBUG[2025-08-26 05:02:56.726][conn$getEntryContent] Get ChEBI example connector entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:02:56.774][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-26 05:02:56.780][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649/17001.xml.
biodb.DEBUG[2025-08-26 05:02:56.782][conn$getEntryContent] 1 ChEBI example connector entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:56.784][self$createEntryFromContent] Creating ChEBI example connector entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:56.786][self$createEntryFromContent] Parsing 1 ChEBI example connector entries.
biodb.DEBUG[2025-08-26 05:02:56.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:56.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:56.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:56.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:56.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:56.996][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:56.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.011][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:57.013][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:57.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.016][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:57.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.025][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:57.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:57.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:57.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:57.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.039][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.041][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.053][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:57.055][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:57.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.061][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:57.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:57.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.082][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:57.084][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:57.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:57.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:57.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.098][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:57.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:57.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.116][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:57.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:57.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:57.201][self$createEntryFromContent] Accession numbers: 17001.
biodb.DEBUG[2025-08-26 05:02:57.205][private$loadEntries] Creating entries from ids [1]: "foo".
biodb.DEBUG[2025-08-26 05:02:57.207][conn$getEntryContent] Get ChEBI example connector entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:02:57.210][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-08-26 05:02:57.212][conn$getEntryContent] 0 ChEBI example connector entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:57.214][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI example connector database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:57.216][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:57.218][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:57.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-26 05:02:57.235][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=foo".
fscache.INFO [2025-08-26 05:02:57.272][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-08-26 05:02:57.282][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/52b1290556252f6c7f5bf0ca3cdd19f5.content.
sched.DEBUG[2025-08-26 05:02:57.286][scheduler$sendRequest] Content loaded from cache.
fscache.INFO [2025-08-26 05:02:57.289][cch$saveContents] Save 1 contents to /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-08-26 05:02:57.298][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:57.300][self$createEntryFromContent] Creating ChEBI example connector entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:02:57.307][self$createEntryFromContent] Parsing 1 ChEBI example connector entries.
biodb.DEBUG[2025-08-26 05:02:57.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:57.334][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.359][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:57.361][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:57.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.367][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:57.369][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:57.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.375][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.377][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.382][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:57.384][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:57.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.403][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:57.404][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:57.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:57.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:57.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:57.488][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-26 05:02:57.490][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-26 05:02:57.500][private$loadEntries] Creating entries from ids [3]: "2528, 15440, 7799".
biodb.DEBUG[2025-08-26 05:02:57.502][conn$getEntryContent] Get ChEBI example connector entry content(s) for 3 id(s)...
fscache.INFO [2025-08-26 05:02:57.511][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-08-26 05:02:57.512][conn$getEntryContent] 0 ChEBI example connector entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:02:57.514][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI example connector database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:57.516][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:02:57.517][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:02:57.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-26 05:02:57.585][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2025-08-26 05:02:57.588][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-08-26 05:02:57.643][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/fafb70ebb6d5e6205d5f844050def031.content.
sched.DEBUG[2025-08-26 05:02:57.650][scheduler$sendRequest] Content loaded from cache.
biodb.DEBUG[2025-08-26 05:02:57.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-26 05:02:57.659][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2025-08-26 05:02:57.662][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-08-26 05:02:57.676][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/275e5cec64ca81e7c2b64bc7601733b7.content.
sched.DEBUG[2025-08-26 05:02:57.678][scheduler$sendRequest] Content loaded from cache.
biodb.DEBUG[2025-08-26 05:02:57.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-26 05:02:57.691][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2025-08-26 05:02:57.698][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-08-26 05:02:57.716][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c77fd169e99a45c9864e07ad3ff234eb.content.
sched.DEBUG[2025-08-26 05:02:57.726][scheduler$sendRequest] Content loaded from cache.
fscache.INFO [2025-08-26 05:02:57.754][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-08-26 05:02:57.761][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:02:57.785][self$createEntryFromContent] Creating ChEBI example connector entries from 3 content(s).
biodb.DEBUG[2025-08-26 05:02:57.793][self$createEntryFromContent] Parsing 3 ChEBI example connector entries.
biodb.DEBUG[2025-08-26 05:02:57.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:57.817][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.831][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:57.833][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:57.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.838][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:57.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:57.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.845][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:57.846][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:57.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:57.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:57.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.858][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.859][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:57.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.871][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:57.872][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:57.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.886][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:57.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:57.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.894][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:57.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.907][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:57.909][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:57.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:57.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:57.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.920][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:57.922][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:57.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.927][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:57.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:57.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:57.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:57.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:57.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:57.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:57.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:57.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:57.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:57.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:57.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:57.997][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:57.999][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.024][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:58.025][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:58.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.030][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:58.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:58.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.037][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:58.039][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:58.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:58.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:58.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.066][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:58.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:58.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:58.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:58.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.080][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.105][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:58.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:58.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.110][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:58.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:58.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:58.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:58.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:58.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:58.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:58.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:02:58.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:58.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:58.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:02:58.183][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.185][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.196][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:58.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:58.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.203][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:02:58.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:02:58.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.209][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:58.211][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:58.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:02:58.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:02:58.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.224][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:02:58.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.235][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:58.237][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:58.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.242][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:02:58.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:02:58.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.251][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.254][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:02:58.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.262][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:58.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:58.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:02:58.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:02:58.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.285][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:58.287][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:58.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:02:58.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:02:58.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:02:58.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:02:58.398][self$createEntryFromContent] Accession numbers: 2528, 15440, 7799.
biodb.TRACE[2025-08-26 05:02:58.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:02:58.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:02:58.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:02:58.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:02:58.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:02:58.514][biodb::testThat]
biodb.INFO [2025-08-26 05:02:58.515][biodb::testThat] Running test function  test_urlChange  (" We can add or change URLs. ").
biodb.INFO [2025-08-26 05:02:58.517][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:58.518][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:58.521][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:58.521][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:02:58.521][self$setPropertyValue] Setting property "urls" to "/some/path/to/local/file".
biodb.DEBUG[2025-08-26 05:02:58.522][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:58.524][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.INFO [2025-08-26 05:02:58.532][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-26 05:02:58.538][self$deleteConn] Connector "chebi.ex" deleted.
biodb.DEBUG[2025-08-26 05:02:58.540][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:58.541][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:58.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:58.544][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:58.580][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:58.587][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:58.626][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:58.628][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:58.634][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:58.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.649][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:58.651][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:58.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.666][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:58.668][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:58.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.680][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:58.681][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:58.683][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:58.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.694][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:58.695][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:58.701][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:58.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.716][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:58.718][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:58.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.734][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:58.736][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:58.742][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:58.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.757][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:58.759][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:58.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.775][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:58.790][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:58.792][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:58.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.799][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:58.801][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:58.803][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:58.805][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:58.806][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:58.808][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:58.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.814][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:58.816][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:58.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.825][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[2025-08-26 05:02:58.827][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:58.829][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:58.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.835][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:58.837][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:58.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.843][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:58.845][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:58.847][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:58.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.854][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:58.856][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:58.890][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:58.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.903][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:02:58.909][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:02:58.911][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:02:58.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:58.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:58.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:58.923][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:02:58.934][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:58.936][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:02:58.948][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:58.950][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:58.951][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:58.953][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:58.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:58.956][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:58.958][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:58.960][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:58.962][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:58.963][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:02:58.965][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:58.967][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:58.968][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:58.970][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:58.970][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:58.970][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:58.970][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:58.970][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:58.971][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:58.973][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:58.974][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:58.976][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:58.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:58.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:58.981][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:58.983][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:58.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:58.986][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:58.988][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:58.990][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:58.992][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:02:58.996][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:58.998][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:59.000][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.002][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:59.003][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.006][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.008][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.010][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.011][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:59.013][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:59.015][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.018][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:02:59.020][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:59.021][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.023][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.024][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:59.024][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:59.024][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:59.024][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:02:59.024][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:02:59.026][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:59.027][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.030][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:59.032][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.033][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.035][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.037][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.038][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:59.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:59.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.043][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.045][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:02:59.056][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.058][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:02:59.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.062][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:59.065][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.067][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.069][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.070][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.072][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:02:59.073][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:59.075][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.076][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:02:59.078][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:59.080][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.081][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.083][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.084][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:59.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.089][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:59.090][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.091][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.093][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.094][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.096][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:59.097][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:59.099][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.100][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.102][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:02:59.105][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.106][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:02:59.108][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.109][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:59.111][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.112][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.114][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.115][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.117][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:02:59.118][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:59.120][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.121][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:02:59.123][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:59.124][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.126][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.127][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.129][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:02:59.130][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.131][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.133][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:59.134][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.136][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.137][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.138][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.140][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:59.141][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:59.143][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.144][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:02:59.146][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:59.148][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.176][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[2025-08-26 05:02:59.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.277][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:02:59.280][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:02:59.282][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:02:59.284][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:02:59.287][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:02:59.294][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:02:59.296][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:59.299][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:59.305][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:02:59.308][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:02:59.310][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:02:59.313][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:02:59.315][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:02:59.327][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:02:59.330][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:02:59.333][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:02:59.335][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:02:59.338][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:02:59.340][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:02:59.343][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:02:59.346][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:02:59.349][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:02:59.352][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:02:59.355][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:02:59.358][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:02:59.360][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:02:59.363][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:02:59.366][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:02:59.368][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:02:59.371][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:02:59.373][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:02:59.376][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:02:59.379][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:02:59.386][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:02:59.390][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:02:59.393][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:02:59.396][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:02:59.403][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:02:59.405][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:02:59.408][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:02:59.411][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:02:59.413][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:02:59.416][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:02:59.418][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:02:59.421][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:02:59.424][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:02:59.426][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:02:59.429][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:02:59.432][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:02:59.435][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:02:59.437][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:02:59.440][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:02:59.443][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:02:59.445][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:02:59.457][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:02:59.460][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:02:59.464][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:02:59.467][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:02:59.470][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:02:59.472][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:02:59.475][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:02:59.477][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:02:59.480][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:02:59.482][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:02:59.485][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:02:59.487][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:02:59.489][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:02:59.492][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:02:59.494][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:02:59.497][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:02:59.499][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:02:59.502][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:02:59.504][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:02:59.506][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:02:59.509][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:02:59.511][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:02:59.513][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:02:59.516][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:02:59.518][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:02:59.520][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:02:59.523][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:02:59.525][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:02:59.527][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:02:59.530][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:02:59.532][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:02:59.534][biodb::testContext]
biodb.INFO [2025-08-26 05:02:59.536][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:59.538][biodb::testContext] Test context - Test BiodbFactory.
biodb.INFO [2025-08-26 05:02:59.539][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:02:59.541][biodb::testContext]
biodb.INFO [2025-08-26 05:02:59.543][biodb::testThat]
biodb.INFO [2025-08-26 05:02:59.544][biodb::testThat] Running test function  test.connectorDefaultValues  (" A newly created connector get the default values. ").
biodb.INFO [2025-08-26 05:02:59.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:59.547][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:59.555][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_ex.yml".
biodb.DEBUG[2025-08-26 05:02:59.557][self$getDbsInfo()$define] Define connector chebi.ex.
biodb.DEBUG[2025-08-26 05:02:59.560][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.562][self$setPropertyValue] Setting property "description" to "An example connector for ChEBI.".
biodb.DEBUG[2025-08-26 05:02:59.564][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.565][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:02:59.567][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.568][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.570][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.571][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-26 05:02:59.573][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 05:02:59.574][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:02:59.576][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.577][self$setPropertyValue] Setting property "name" to "ChEBI example connector".
biodb.DEBUG[2025-08-26 05:02:59.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.582][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.583][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:59.583][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:59.583][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:59.585][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 05:02:59.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.589][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:59.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.592][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:02:59.596][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:59.596][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:02:59.597][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:59.599][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:59.600][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 05:02:59.602][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:02:59.602][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:02:59.605][self$getEntryFields()$define] Define field chebi.ex.id.
biodb.DEBUG[2025-08-26 05:02:59.612][super$initialize] Initialize connector chebi.ex.
biodb.DEBUG[2025-08-26 05:02:59.617][biodb$getFactory()$createConn] Creating new connector chebi.ex for database class chebi.ex .
biodb.INFO [2025-08-26 05:02:59.627][self$deleteConn] Connector "chebi.ex" deleted.
biodb.INFO [2025-08-26 05:02:59.635][biodb::testThat]
biodb.INFO [2025-08-26 05:02:59.647][biodb::testThat] Running test function  test.connectorDeletion  (" Connectors are deleted. ").
biodb.INFO [2025-08-26 05:02:59.649][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:02:59.650][biodb::testThat]
biodb.DEBUG[2025-08-26 05:02:59.659][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_ex.yml".
biodb.DEBUG[2025-08-26 05:02:59.661][self$getDbsInfo()$define] Define connector chebi.ex.
biodb.DEBUG[2025-08-26 05:02:59.663][self$setPropertyValue] Setting property "name" to "ChEBI example connector".
biodb.DEBUG[2025-08-26 05:02:59.665][self$setPropertyValue] Setting property "description" to "An example connector for ChEBI.".
biodb.DEBUG[2025-08-26 05:02:59.667][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.668][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-26 05:02:59.670][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.672][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.676][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.678][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.680][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.684][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:02:59.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:02:59.687][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:02:59.687][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:02:59.687][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:02:59.689][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 05:02:59.691][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:02:59.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.696][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 05:02:59.697][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:02:59.699][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:02:59.700][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:59.700][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:02:59.702][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:59.704][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:59.706][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:02:59.706][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:02:59.707][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:02:59.709][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:02:59.711][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:02:59.711][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:02:59.712][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:02:59.712][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:02:59.714][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:02:59.716][self$getEntryFields()$define] Define field chebi.ex.id.
biodb.DEBUG[2025-08-26 05:02:59.723][super$initialize] Initialize connector chebi.ex.
biodb.DEBUG[2025-08-26 05:02:59.727][biodb$getFactory()$createConn] Creating new connector chebi.ex for database class chebi.ex .
biodb.DEBUG[2025-08-26 05:02:59.733][super$initialize] Initialize connector chebi.ex.1.
biodb.DEBUG[2025-08-26 05:02:59.737][biodb$getFactory()$createConn] Creating new connector chebi.ex.1 for database class chebi.ex , with base URL "http://some.fake.chebi.site/".
biodb.INFO [2025-08-26 05:02:59.747][self$deleteConn] Connector "chebi.ex" deleted.
biodb.INFO [2025-08-26 05:02:59.749][self$deleteConn] Connector "chebi.ex.1" deleted.
biodb.INFO [2025-08-26 05:02:59.757][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:02:59.758][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:02:59.760][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:02:59.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:02:59.763][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:02:59.788][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:02:59.795][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:02:59.809][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:02:59.811][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:02:59.817][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:02:59.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.830][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:02:59.832][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:02:59.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.837][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[2025-08-26 05:02:59.838][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:02:59.840][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:02:59.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.846][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:02:59.847][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:02:59.849][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:02:59.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.855][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:02:59.856][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:02:59.858][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:02:59.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.864][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:02:59.865][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:02:59.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.888][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:02:59.890][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:02:59.892][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:02:59.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.898][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:02:59.900][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:02:59.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.905][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:02:59.906][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:02:59.908][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:02:59.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.913][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:59.915][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:02:59.916][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:02:59.917][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:02:59.919][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:02:59.920][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:02:59.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.926][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:02:59.928][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:02:59.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.933][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:02:59.934][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:02:59.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.961][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:02:59.963][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:02:59.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.968][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:02:59.969][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:02:59.971][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:02:59.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.976][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:02:59.978][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:02:59.994][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:02:59.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:02:59.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:02:59.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:02:59.999][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:03:00.009][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:03:00.011][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:03:00.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.026][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:03:00.033][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.035][self$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[2025-08-26 05:03:00.036][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.042][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:00.043][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.049][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.051][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.056][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.058][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:03:00.060][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:00.061][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.063][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:03:00.064][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:00.066][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.067][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.069][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:03:00.069][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:03:00.069][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:03:00.069][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:03:00.069][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:03:00.070][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:00.072][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.075][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:00.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.077][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.079][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.080][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.082][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:00.083][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:00.084][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.086][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.088][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:03:00.090][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.092][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:03:00.094][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.095][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:00.097][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.098][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.099][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.101][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.102][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:03:00.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:00.105][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.107][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:03:00.108][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:00.110][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.121][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.123][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:03:00.123][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:03:00.123][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:03:00.123][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:03:00.123][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:03:00.124][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:00.126][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.129][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:00.131][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.132][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.134][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.135][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.136][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:00.138][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:00.139][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.141][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.142][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:03:00.145][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.146][self$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[2025-08-26 05:03:00.148][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.149][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:00.150][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.152][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.153][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.155][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.156][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:03:00.157][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:00.159][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.160][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:03:00.162][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:00.163][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.164][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.166][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.167][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:00.169][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.170][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.171][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:00.173][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.174][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.175][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.177][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.178][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:00.180][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:00.181][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.182][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.184][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:03:00.187][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.188][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:03:00.190][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.191][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:00.193][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.194][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.196][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.198][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.199][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:03:00.200][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:00.202][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.203][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:03:00.205][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:00.206][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.208][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:00.210][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.211][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:00.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.214][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.215][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:00.216][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:00.218][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:00.219][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:00.220][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.222][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:00.224][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:00.225][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:00.227][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:00.229][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:03:00.230][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.244][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[2025-08-26 05:03:00.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.323][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[2025-08-26 05:03:00.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.359][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[2025-08-26 05:03:00.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:00.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:00.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:00.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:00.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:00.377][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:03:00.379][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:03:00.381][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:03:00.384][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:03:00.386][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:03:00.389][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:03:00.391][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:03:00.394][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:03:00.397][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:03:00.399][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:03:00.402][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:03:00.404][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:03:00.406][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:03:00.409][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:03:00.411][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:03:00.414][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:03:00.416][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:03:00.419][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:03:00.421][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:03:00.424][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:03:00.426][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:03:00.428][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:03:00.431][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:03:00.433][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:03:00.436][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:03:00.438][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:03:00.441][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:03:00.443][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:03:00.446][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:03:00.449][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:03:00.451][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:03:00.454][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:03:00.456][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:03:00.459][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:03:00.461][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:03:00.464][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:03:00.467][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:03:00.469][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:03:00.472][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:03:00.485][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:03:00.488][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:03:00.491][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:03:00.494][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:03:00.497][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:03:00.499][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:03:00.502][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:03:00.504][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:03:00.507][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:03:00.509][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:03:00.511][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:03:00.514][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:03:00.516][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:03:00.519][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:03:00.521][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:03:00.524][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:03:00.526][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:03:00.528][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:03:00.531][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:03:00.533][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:03:00.535][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:03:00.538][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:03:00.540][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:03:00.542][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:03:00.544][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:03:00.547][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:03:00.549][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:03:00.552][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:03:00.554][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:03:00.556][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:03:00.558][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:03:00.561][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:03:00.563][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:03:00.565][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:03:00.568][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:03:00.570][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:03:00.573][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:03:00.575][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:03:00.577][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:03:00.580][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:03:00.582][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:03:00.584][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:03:00.586][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:03:00.589][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:03:00.591][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:03:00.614][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:03:00.617][biodb::testContext]
biodb.INFO [2025-08-26 05:03:00.618][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:03:00.620][biodb::testContext] Test context - Test BiodbEntryField.
biodb.INFO [2025-08-26 05:03:00.621][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:03:00.623][biodb::testContext]
biodb.INFO [2025-08-26 05:03:00.625][biodb::testThat]
biodb.INFO [2025-08-26 05:03:00.626][biodb::testThat] Running test function  test_entryFields  (" BiodbEntryFields class works fine. ").
biodb.INFO [2025-08-26 05:03:00.627][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:00.629][biodb::testThat]
biodb.TRACE[2025-08-26 05:03:00.632][biodb$getEntryFields()$get] Asked field names are: monoisotopic.mass, nominal.mass.
biodb.TRACE[2025-08-26 05:03:00.633][biodb$getEntryFields()$get] Realnames of fields are: monoisotopic.mass, nominal.mass.
biodb.TRACE[2025-08-26 05:03:00.635][biodb$getEntryFields()$get] 2 fields were returned.
biodb.TRACE[2025-08-26 05:03:00.636][biodb$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:03:00.804][biodb::testThat]
biodb.INFO [2025-08-26 05:03:01.013][biodb::testThat] Running test function  test_newAlias  (" We can add a new alias. ").
biodb.INFO [2025-08-26 05:03:01.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:01.023][biodb::testThat]
biodb.TRACE[2025-08-26 05:03:01.026][efs$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:03:01.028][efs$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:03:01.034][efs$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:01.035][efs$get] fields variable is a list.
biodb.INFO [2025-08-26 05:03:01.077][biodb::testThat]
biodb.INFO [2025-08-26 05:03:01.093][biodb::testThat] Running test function  test_newComputableFrom  (" We can add new database for ComputableFrom. ").
biodb.INFO [2025-08-26 05:03:01.095][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:01.119][biodb::testThat]
biodb.TRACE[2025-08-26 05:03:01.127][efs$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:03:01.134][efs$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:03:01.136][efs$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:01.142][efs$get] fields variable is a list.
biodb.INFO [2025-08-26 05:03:01.191][biodb::testThat]
biodb.INFO [2025-08-26 05:03:01.192][biodb::testThat] Running test function  test_updateEntryField  (" We can update an entry field. ").
biodb.INFO [2025-08-26 05:03:01.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:01.195][biodb::testThat]
biodb.TRACE[2025-08-26 05:03:01.197][efs$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:03:01.199][efs$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:03:01.200][efs$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:01.202][efs$get] fields variable is a list.
biodb.INFO [2025-08-26 05:03:01.212][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 05:03:01.213][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:03:01.215][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.217][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:03:01.263][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:03:01.305][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:03:01.330][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:03:01.332][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:03:01.334][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:03:01.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.341][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:03:01.343][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:03:01.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.349][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:03:01.350][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:03:01.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.356][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:03:01.358][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:03:01.359][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:03:01.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.365][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:03:01.367][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:03:01.369][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:03:01.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.374][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:03:01.376][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:03:01.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.382][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:03:01.383][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:03:01.385][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:03:01.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.390][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:03:01.392][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:03:01.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.397][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:03:01.399][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:03:01.401][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:03:01.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.405][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[2025-08-26 05:03:01.406][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:03:01.408][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:03:01.409][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:03:01.411][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:03:01.412][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:03:01.414][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:03:01.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.421][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:03:01.422][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:03:01.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.429][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:03:01.431][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:03:01.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.447][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:03:01.449][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:03:01.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.456][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:03:01.457][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:03:01.459][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:03:01.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.465][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:03:01.467][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:03:01.484][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:03:01.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.489][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:03:01.491][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:03:01.492][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:03:01.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.498][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:03:01.501][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.503][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:03:01.504][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.506][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:01.507][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.509][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.510][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.511][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.513][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:03:01.514][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:01.516][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.517][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:03:01.519][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:01.520][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.522][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.523][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:03:01.523][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:03:01.523][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:03:01.523][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:03:01.523][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:03:01.525][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:01.526][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.528][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.529][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:01.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.534][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.535][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.537][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:01.538][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:01.539][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.541][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.543][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:03:01.546][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.547][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:03:01.549][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.551][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:01.552][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.554][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.555][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.557][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.558][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:03:01.560][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:01.561][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.563][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:03:01.564][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:01.566][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.567][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.569][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:03:01.569][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:03:01.569][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:03:01.569][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:03:01.569][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:03:01.570][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:01.572][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.573][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.574][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:01.576][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.577][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.579][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.580][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.582][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:01.583][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:01.584][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.586][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.588][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:03:01.590][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.592][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:03:01.593][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.595][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:01.597][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.598][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.600][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.601][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.603][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:03:01.605][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:01.606][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.608][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:03:01.609][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:01.611][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.621][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.622][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.624][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:01.626][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.629][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:01.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.634][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.635][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.637][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:01.638][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:01.640][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.641][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.643][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:03:01.646][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.647][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:03:01.649][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.650][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:01.652][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.653][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.654][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.656][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.657][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:03:01.659][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:01.660][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.662][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:03:01.663][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:01.665][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.666][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:01.667][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.669][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:01.670][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.672][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.673][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:01.675][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:01.676][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:01.677][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:01.679][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.680][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:01.682][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:01.683][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:01.684][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:01.686][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:03:01.688][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:03:01.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:03:01.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:01.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:01.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:01.807][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[2025-08-26 05:03:01.809][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:03:01.811][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:03:01.813][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:03:01.816][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:03:01.818][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:03:01.820][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:03:01.822][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:03:01.824][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:03:01.827][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:03:01.829][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:03:01.831][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:03:01.833][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:03:01.836][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:03:01.838][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:03:01.840][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:03:01.842][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:03:01.847][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:03:01.850][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:03:01.852][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:03:01.858][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:03:01.861][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:03:01.863][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:03:01.866][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:03:01.868][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:03:01.870][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:03:01.873][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:03:01.875][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:03:01.877][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:03:01.880][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:03:01.882][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:03:01.884][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:03:01.886][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:03:01.889][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:03:01.891][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:03:01.894][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:03:01.897][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:03:01.899][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:03:01.904][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:03:01.906][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:03:01.909][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:03:01.911][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:03:01.913][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:03:01.916][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:03:01.918][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:03:01.920][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:03:01.923][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:03:01.925][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:03:01.927][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:03:01.930][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:03:01.932][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:03:01.935][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:03:01.937][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:03:01.939][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:03:01.941][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:03:01.944][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:03:01.970][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:03:01.981][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:03:01.984][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:03:01.989][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:03:01.992][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:03:01.995][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:03:01.998][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:03:02.000][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:03:02.003][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:03:02.005][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:03:02.008][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:03:02.010][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:03:02.012][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:03:02.014][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:03:02.017][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:03:02.019][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:03:02.021][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:03:02.023][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:03:02.025][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:03:02.028][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:03:02.030][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:03:02.032][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:03:02.035][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:03:02.037][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:03:02.039][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:03:02.042][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:03:02.044][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:03:02.047][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:03:02.049][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:03:02.052][initialize] This is biodb version 1.17.1.
biodb.INFO [2025-08-26 05:03:02.054][biodb::testContext]
biodb.INFO [2025-08-26 05:03:02.055][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:03:02.057][biodb::testContext] Test context - Test definition of extensions.
biodb.INFO [2025-08-26 05:03:02.058][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:03:02.060][biodb::testContext]
biodb.INFO [2025-08-26 05:03:02.062][biodb::testThat]
biodb.INFO [2025-08-26 05:03:02.063][biodb::testThat] Running test function  test_getReposName  (" We can get the remote repository name. ").
biodb.INFO [2025-08-26 05:03:02.065][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:02.066][biodb::testThat]
biodb.INFO [2025-08-26 05:03:02.568][biodb::testThat]
biodb.INFO [2025-08-26 05:03:02.575][biodb::testThat] Running test function  test_new_field  (" We can define a new field. ").
biodb.INFO [2025-08-26 05:03:02.577][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:02.578][biodb::testThat]
biodb.DEBUG[2025-08-26 05:03:02.581][ef$define] Define field n_stars.
biodb.INFO [2025-08-26 05:03:02.593][biodb::testThat]
biodb.INFO [2025-08-26 05:03:02.595][biodb::testThat] Running test function  test_load_definitions  (" We can load definitions from a file. ").
biodb.INFO [2025-08-26 05:03:02.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:02.598][biodb::testThat]
biodb.DEBUG[2025-08-26 05:03:02.629][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/hmdb.yml".
biodb.DEBUG[2025-08-26 05:03:02.633][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 05:03:02.635][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.641][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-26 05:03:02.643][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.645][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:02.646][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.648][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:02.650][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.651][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:03:02.653][self$setPropertyValue] Setting property "entry.content.type" to "txt".
biodb.DEBUG[2025-08-26 05:03:02.655][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:02.656][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.658][self$setPropertyValue] Setting property "name" to "HMDB".
biodb.DEBUG[2025-08-26 05:03:02.659][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:02.661][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:02.662][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.664][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:02.666][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:03:02.677][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:02.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:02.680][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:02.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:02.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:02.696][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:02.697][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:02.699][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:02.701][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:02.711][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:02.713][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:03:02.717][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/hmdb_sec_acc_def.yml".
biodb.DEBUG[2025-08-26 05:03:02.783][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 05:03:02.797][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-26 05:03:02.798][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:02.800][self$getEntryFields()$define] Define field secondary_accessions.
biodb.INFO [2025-08-26 05:03:08.498][biodb::testThat]
biodb.INFO [2025-08-26 05:03:08.524][biodb::testThat] Running test function  test_new_parsing_expr  (" We can define a new parsing expression. ").
biodb.INFO [2025-08-26 05:03:08.549][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:08.551][biodb::testThat]
biodb.DEBUG[2025-08-26 05:03:08.590][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_ex.yml".
biodb.DEBUG[2025-08-26 05:03:08.613][self$getDbsInfo()$define] Define connector chebi.ex.
biodb.DEBUG[2025-08-26 05:03:08.621][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:08.622][self$setPropertyValue] Setting property "description" to "An example connector for ChEBI.".
biodb.DEBUG[2025-08-26 05:03:08.624][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:08.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:03:08.629][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:08.631][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:03:08.633][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:08.635][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-26 05:03:08.637][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 05:03:08.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:03:08.640][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:08.642][self$setPropertyValue] Setting property "name" to "ChEBI example connector".
biodb.DEBUG[2025-08-26 05:03:08.643][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:08.644][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:08.646][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:08.649][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:03:08.649][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:03:08.649][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:03:08.650][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 05:03:08.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:08.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:08.655][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:08.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:08.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:08.659][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:03:08.661][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:03:08.661][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:03:08.662][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:08.664][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:08.665][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 05:03:08.666][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:03:08.666][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:03:08.668][self$getEntryFields()$define] Define field chebi.ex.id.
biodb.DEBUG[2025-08-26 05:03:08.682][ef$define] Define field n_stars.
biodb.DEBUG[2025-08-26 05:03:08.693][di$define] Define connector chebi.ex.
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:08.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:08.697][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:08.701][super$initialize] Initialize connector chebi.ex.
biodb.DEBUG[2025-08-26 05:03:08.717][self$createConn] Creating new connector chebi.ex for database class chebi.ex .
biodb.DEBUG[2025-08-26 05:03:08.719][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-26 05:03:08.748][conn$getEntryContent] Get ChEBI example connector entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:03:08.757][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-26 05:03:08.796][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi.ex-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-08-26 05:03:08.800][conn$getEntryContent] 1 ChEBI example connector entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:03:08.802][self$createEntryFromContent] Creating ChEBI example connector entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:03:08.804][self$createEntryFromContent] Parsing 1 ChEBI example connector entries.
biodb.DEBUG[2025-08-26 05:03:08.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:03:08.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:03:08.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:03:08.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:03:08.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:03:08.842][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:08.843][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:08.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:08.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.855][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:03:08.856][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:03:08.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.861][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:03:08.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:03:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:03:08.879][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:03:08.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 05:03:08.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 05:03:08.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:03:08.894][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:03:08.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 05:03:08.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 05:03:08.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.907][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:03:08.908][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:03:08.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.914][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-26 05:03:08.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:03:08.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.920][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:03:08.922][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:03:08.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:03:08.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:03:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.933][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:03:08.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:03:08.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:03:08.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:03:08.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.946][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:03:08.948][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:03:08.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.953][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:03:08.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:03:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.959][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-26 05:03:08.961][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-26 05:03:08.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-26 05:03:08.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-26 05:03:08.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:03:08.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:03:08.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:03:08.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:03:08.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:08.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:08.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:03:08.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.ex.id.
biodb.TRACE[2025-08-26 05:03:08.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:08.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:08.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:08.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:09.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:09.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:09.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:09.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:09.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:09.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:09.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:03:09.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:03:09.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:03:09.034][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-26 05:03:09.037][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-26 05:03:09.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-26 05:03:09.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.052][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-26 05:03:09.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-26 05:03:09.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:03:09.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-26 05:03:09.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-26 05:03:09.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:03:09.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:03:09.073][biodb::testThat]
biodb.INFO [2025-08-26 05:03:09.075][biodb::testThat] Running test function  test_chebiExShow  (" print() method works correctly. ").
biodb.INFO [2025-08-26 05:03:09.077][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:09.078][biodb::testThat]
biodb.DEBUG[2025-08-26 05:03:09.083][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_ex.yml".
biodb.DEBUG[2025-08-26 05:03:09.085][self$getDbsInfo()$define] Define connector chebi.ex.
biodb.DEBUG[2025-08-26 05:03:09.101][self$setPropertyValue] Setting property "name" to "ChEBI example connector".
biodb.DEBUG[2025-08-26 05:03:09.103][self$setPropertyValue] Setting property "description" to "An example connector for ChEBI.".
biodb.DEBUG[2025-08-26 05:03:09.104][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:09.106][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-26 05:03:09.107][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.114][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.119][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:chebiAsciiName".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-26 05:03:09.121][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-26 05:03:09.123][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:03:09.123][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:03:09.123][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:03:09.125][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 05:03:09.126][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:03:09.128][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:09.129][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:09.131][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 05:03:09.132][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:03:09.134][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:03:09.135][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:03:09.135][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:03:09.137][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:09.138][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:09.140][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-26 05:03:09.140][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-26 05:03:09.141][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:03:09.142][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:03:09.144][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:03:09.144][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:03:09.146][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-26 05:03:09.146][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-26 05:03:09.148][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:03:09.149][self$getEntryFields()$define] Define field chebi.ex.id.
biodb.INFO [2025-08-26 05:03:09.165][biodb::testThat]
biodb.INFO [2025-08-26 05:03:09.166][biodb::testThat] Running test function  test_newExtPkgSkeletonGeneration  (" We can generate a skeleton for a new extension package. ").
biodb.INFO [2025-08-26 05:03:09.168][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:03:09.170][biodb::testThat]
biodb.INFO [2025-08-26 05:15:05.084][biodb::testThat]
biodb.INFO [2025-08-26 05:15:05.090][biodb::testThat] Running test function  test_upgradeExtPkg  (" We can upgrade the files of an extension package. ").
biodb.INFO [2025-08-26 05:15:05.092][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:05.093][biodb::testThat]
biodb.INFO [2025-08-26 05:15:05.925][private[[private$upgrader]]] Upgrade to latest version (1.4.14) of Makefile.
biodb.INFO [2025-08-26 05:15:06.389][private[[private$upgrader]]] Upgrade to latest version (1.4.14) of Makefile.
biodb.INFO [2025-08-26 05:15:06.861][private[[private$upgrader]]] Upgrade to latest version (1.4.14) of Makefile.
biodb.INFO [2025-08-26 05:15:06.999][biodb::testThat]
biodb.INFO [2025-08-26 05:15:07.005][biodb::testThat] Running test function  test_useDotForCurrentDir  (" We can use '.' (current directory) for the package path. ").
biodb.INFO [2025-08-26 05:15:07.006][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:07.008][biodb::testThat]
biodb.INFO [2025-08-26 05:15:24.823][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-26 05:15:24.902][self$deleteConn] Connector "chebi.ex" deleted.
biodb.DEBUG[2025-08-26 05:15:25.019][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 05:15:25.050][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:25.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:25.054][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:25.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:15:27.586][biodb::testContext]
biodb.INFO [2025-08-26 05:15:27.645][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:15:27.647][biodb::testContext] Test context - CompCsvFile generic tests
biodb.INFO [2025-08-26 05:15:27.654][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:15:27.656][biodb::testContext]
biodb.INFO [2025-08-26 05:15:27.664][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:15:27.672][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 05:15:27.717][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:15:27.719][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 05:15:27.722][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 05:15:27.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.729][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 05:15:27.731][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 05:15:27.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.742][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 05:15:27.744][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 05:15:27.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.750][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 05:15:27.752][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 05:15:27.755][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 05:15:27.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.762][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 05:15:27.764][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 05:15:27.767][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 05:15:27.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.783][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 05:15:27.791][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:15:27.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.803][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 05:15:27.809][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 05:15:27.811][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 05:15:27.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.826][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 05:15:27.828][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 05:15:27.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.834][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 05:15:27.836][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 05:15:27.838][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 05:15:27.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.844][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:15:27.846][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 05:15:27.847][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 05:15:27.849][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 05:15:27.850][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 05:15:27.852][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 05:15:27.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.857][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 05:15:27.859][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 05:15:27.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.872][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[2025-08-26 05:15:27.878][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 05:15:27.880][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 05:15:27.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.895][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 05:15:27.902][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 05:15:27.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.917][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 05:15:27.919][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 05:15:27.926][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 05:15:27.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:27.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:27.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:27.934][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 05:15:27.935][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 05:15:28.262][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 05:15:28.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.277][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 05:15:28.279][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 05:15:28.286][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 05:15:28.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.302][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:15:28.310][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.312][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 05:15:28.318][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.325][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:15:28.327][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.333][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.335][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.341][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.343][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:15:28.350][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:15:28.352][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.358][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 05:15:28.364][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:15:28.367][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.373][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.375][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:15:28.375][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:28.375][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:28.375][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:15:28.375][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:15:28.381][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:15:28.383][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.392][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:15:28.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.406][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.413][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.415][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:15:28.421][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:15:28.423][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.429][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.432][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 05:15:28.440][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.446][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:15:28.448][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.454][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:15:28.456][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.462][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.464][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.470][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.472][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:15:28.478][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:15:28.485][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.487][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 05:15:28.493][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:15:28.495][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.501][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.503][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 05:15:28.503][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:28.503][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:28.503][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 05:15:28.503][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 05:15:28.509][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:15:28.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.515][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:15:28.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.522][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.533][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.535][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:15:28.540][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:15:28.542][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.547][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.549][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 05:15:28.554][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.556][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 05:15:28.558][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.560][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:15:28.562][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.564][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.569][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.571][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.573][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 05:15:28.575][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:15:28.577][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.581][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 05:15:28.583][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:15:28.585][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.587][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.597][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:15:28.602][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.610][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.612][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:15:28.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.622][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.624][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.630][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:15:28.636][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:15:28.639][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.645][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.647][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 05:15:28.655][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.661][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 05:15:28.663][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.669][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 05:15:28.671][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.678][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.680][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.686][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.693][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 05:15:28.695][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 05:15:28.701][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.704][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 05:15:28.710][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 05:15:28.716][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.719][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 05:15:28.725][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.727][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 05:15:28.733][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.735][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.741][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 05:15:28.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 05:15:28.749][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 05:15:28.751][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 05:15:28.757][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.759][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:15:28.764][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 05:15:28.767][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 05:15:28.773][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 05:15:28.776][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 05:15:28.782][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:28.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:28.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:28.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:28.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:28.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:29.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:29.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:29.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:29.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:29.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:29.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:29.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:29.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:29.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:29.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:29.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:29.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:29.020][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 05:15:29.023][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 05:15:29.026][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 05:15:29.029][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 05:15:29.032][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 05:15:29.034][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 05:15:29.037][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 05:15:29.040][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 05:15:29.043][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 05:15:29.045][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 05:15:29.048][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 05:15:29.051][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 05:15:29.053][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 05:15:29.056][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 05:15:29.059][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 05:15:29.062][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 05:15:29.064][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 05:15:29.067][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 05:15:29.070][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 05:15:29.073][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:15:29.075][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 05:15:29.078][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 05:15:29.081][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 05:15:29.084][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 05:15:29.087][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 05:15:29.090][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 05:15:29.114][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 05:15:29.117][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 05:15:29.120][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 05:15:29.123][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 05:15:29.126][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 05:15:29.129][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 05:15:29.131][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 05:15:29.134][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 05:15:29.137][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 05:15:29.140][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 05:15:29.143][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 05:15:29.146][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 05:15:29.149][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 05:15:29.151][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 05:15:29.154][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 05:15:29.157][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 05:15:29.160][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 05:15:29.163][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 05:15:29.165][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 05:15:29.168][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 05:15:29.171][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 05:15:29.174][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 05:15:29.177][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 05:15:29.179][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 05:15:29.187][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 05:15:29.190][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 05:15:29.193][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 05:15:29.196][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 05:15:29.199][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 05:15:29.202][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 05:15:29.204][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 05:15:29.207][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 05:15:29.210][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 05:15:29.213][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 05:15:29.215][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 05:15:29.218][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 05:15:29.221][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 05:15:29.224][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 05:15:29.226][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 05:15:29.229][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 05:15:29.231][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 05:15:29.234][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 05:15:29.236][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 05:15:29.239][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 05:15:29.241][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 05:15:29.244][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 05:15:29.246][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 05:15:29.249][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 05:15:29.251][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 05:15:29.254][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 05:15:29.259][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 05:15:29.262][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 05:15:29.264][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 05:15:29.266][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 05:15:29.268][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 05:15:29.270][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 05:15:29.273][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 05:15:29.275][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 05:15:29.297][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-26 05:15:29.314][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2025-08-26 05:15:29.316][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2025-08-26 05:15:29.374][biodb::testThat]
biodb.INFO [2025-08-26 05:15:29.434][biodb::testThat] Running test function  test_cache_for_local_db  (" We can use the cache system for a local database. ").
biodb.INFO [2025-08-26 05:15:29.456][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:29.458][biodb::testThat]
biodb.DEBUG[2025-08-26 05:15:29.464][bdb$getConfig()$set] Set key use.cache.for.local.db to TRUE.
biodb.DEBUG[2025-08-26 05:15:29.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:29.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:29.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:29.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:29.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 05:15:29.505][private$loadEntries] Creating entries from ids [2]: "1018, 15939".
biodb.DEBUG[2025-08-26 05:15:42.514][conn$getEntryContent] Get Compound CSV File entry content(s) for 2 id(s)...
fscache.INFO [2025-08-26 05:15:42.558][cch$loadContents] Load 2 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399.
fscache.DEBUG[2025-08-26 05:15:42.609][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399/1018.tsv.
fscache.DEBUG[2025-08-26 05:15:42.646][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399/15939.tsv.
biodb.DEBUG[2025-08-26 05:15:42.648][conn$getEntryContent] 2 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:15:42.651][self$createEntryFromContent] Creating Compound CSV File entries from 2 content(s).
biodb.DEBUG[2025-08-26 05:15:42.657][self$createEntryFromContent] Parsing 2 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:15:42.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:15:42.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:42.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:42.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:42.668][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.INFO [2025-08-26 05:15:42.683][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2025-08-26 05:15:42.699][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:15:42.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:42.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:42.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.736][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.739][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:15:42.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:42.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:42.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.751][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.759][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.759][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.759][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.761][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.769][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.769][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.769][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.769][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.771][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.773][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.779][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.779][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.779][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.779][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.779][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.781][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:15:42.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:42.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:42.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.797][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.797][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.797][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.797][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.797][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.797][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.799][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:15:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:42.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.811][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.818][self$setField] Set field description to column(s) description.
biodb.TRACE[2025-08-26 05:15:42.820][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:42.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.826][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.829][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.831][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.832][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.834][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.836][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.838][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.841][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:15:42.843][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.TRACE[2025-08-26 05:15:42.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:42.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:42.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:42.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:42.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:42.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:42.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:42.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:42.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:42.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:42.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:42.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:42.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:42.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:42.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:42.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:42.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:42.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:42.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:42.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.955][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:42.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:42.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:42.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:42.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:42.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:42.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:42.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:42.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:42.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:42.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:42.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:42.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:42.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:43.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:15:43.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:43.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:43.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:43.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:15:43.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:43.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:43.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.046][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:43.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:43.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:43.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:43.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:43.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:43.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:43.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.082][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:43.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:43.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:43.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:43.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:43.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:43.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:43.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:43.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:43.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.118][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:43.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:43.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:43.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:43.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.132][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:43.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:43.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.140][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:43.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:43.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.147][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:43.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:43.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.162][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:43.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:43.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:43.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:43.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:43.255][self$createEntryFromContent] Accession numbers: 1018, 15939.
biodb.TRACE[2025-08-26 05:15:43.510][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:43.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:43.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.533][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:43.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:43.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:43.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:43.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:43.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:43.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.014][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.021][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.028][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.035][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.059][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.075][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.089][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.538][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.593][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.613][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.629][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.639][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:44.704][bdb$getConfig()$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 05:15:44.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 05:15:44.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:44.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:44.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:44.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 05:15:44.723][biodb::testThat]
biodb.INFO [2025-08-26 05:15:44.725][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-26 05:15:44.727][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:44.729][biodb::testThat]
biodb.TRACE[2025-08-26 05:15:44.752][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.5.0/site-library/biodb/testref/entry-comp.csv.file-1018-content.tsv".
biodb.DEBUG[2025-08-26 05:15:44.754][biodb$getFactory()$createEntryFromCo ...] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:15:44.757][biodb$getFactory()$createEntryFromCo ...] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:15:44.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:15:44.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:15:44.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:15:44.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:15:44.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:15:44.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:44.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:44.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.789][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:44.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:44.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:44.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:44.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:44.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:44.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:44.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:44.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:44.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.820][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:44.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:44.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.826][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:44.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:44.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:44.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:44.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:44.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.845][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:44.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:44.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:44.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:44.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.857][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:44.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:44.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.863][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:44.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:44.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.870][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:44.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:44.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.876][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:44.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:44.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.888][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:44.931][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 1018.
biodb.TRACE[2025-08-26 05:15:44.947][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:44.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.959][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:44.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.964][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:44.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:44.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:44.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:44.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:44.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.092][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.098][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.104][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:15:45.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.207][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.209][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:45.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:45.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:45.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:45.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:45.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:45.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:45.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:45.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.279][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:45.281][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:45.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:45.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:45.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.327][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:45.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:45.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:45.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:45.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:45.378][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:45.380][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:45.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:45.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.690][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:46.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:46.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.750][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:46.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:46.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:46.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:46.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.787][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:46.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:46.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.794][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:46.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:46.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:46.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:46.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:46.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:46.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:46.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:46.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.843][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:46.845][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:46.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.850][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:46.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:46.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:46.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.944][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:46.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.976][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.983][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.990][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.991][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:46.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:46.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:47.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.016][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:15:47.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:15:47.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.029][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:15:47.031][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:15:47.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.042][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:15:47.044][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:15:47.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.055][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:47.057][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:15:47.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.068][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.070][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:47.083][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:47.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.095][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:15:47.110][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:15:47.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.113][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 05:15:47.127][biodb::testThat]
biodb.INFO [2025-08-26 05:15:47.129][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-26 05:15:47.131][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:47.133][biodb::testThat]
biodb.TRACE[2025-08-26 05:15:47.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-26 05:15:47.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-26 05:15:47.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-26 05:15:47.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-26 05:15:47.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-26 05:15:47.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-26 05:15:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:15:47.190][biodb::testThat]
biodb.INFO [2025-08-26 05:15:47.192][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-26 05:15:47.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:47.196][biodb::testThat]
biodb.TRACE[2025-08-26 05:15:47.201][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.203][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.207][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.209][function(conn, opt)] Testing searchForEntries() with entry "1018" and field "name".
biodb.TRACE[2025-08-26 05:15:47.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.259][function(conn, opt)] With value "2-Aminoethylarsonate".
biodb.DEBUG[2025-08-26 05:15:47.264][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:47.266][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.268][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.271][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.274][function(conn, opt)] With found IDs [1]: "1018".
biodb.TRACE[2025-08-26 05:15:47.293][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:47.295][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:47.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.300][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.301][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.306][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 05:15:47.308][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 05:15:47.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.313][ef$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-26 05:15:47.315][ef$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-26 05:15:47.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.318][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 05:15:47.325][biodb::testThat]
biodb.INFO [2025-08-26 05:15:47.326][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-26 05:15:47.328][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:47.330][biodb::testThat]
biodb.TRACE[2025-08-26 05:15:47.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.464][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:47.466][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.481][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 05:15:47.523][biodb::testThat]
biodb.INFO [2025-08-26 05:15:47.525][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-26 05:15:47.527][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:47.529][biodb::testThat]
biodb.TRACE[2025-08-26 05:15:47.568][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.574][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.580][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:47.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.602][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:15:47.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.608][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:47.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:15:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.615][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:15:47.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.637][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.639][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.643][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:47.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:47.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.647][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 05:15:47.661][biodb::testThat]
biodb.INFO [2025-08-26 05:15:47.663][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-26 05:15:47.664][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:15:47.666][biodb::testThat]
biodb.TRACE[2025-08-26 05:15:47.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.782][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:47.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.785][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.788][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.815][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:47.817][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.842][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 05:15:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 05:15:47.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.892][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.894][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.898][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.900][private$selectByRange] Filtering on field "molecular.mass", with range: [169.002, 169.022].
biodb.DEBUG[2025-08-26 05:15:47.903][private$selectByRange] 13 values to filter on field molecular.mass.
biodb.DEBUG[2025-08-26 05:15:47.937][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:47.939][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:47.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:47.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:47.945][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:47.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:47.949][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:47.982][private$selectByRange] Filtering on field "molecular.mass", with range: [169.002, 169.022].
biodb.DEBUG[2025-08-26 05:15:47.985][private$selectByRange] 1 values to filter on field molecular.mass.
biodb.DEBUG[2025-08-26 05:15:48.016][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:48.018][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:48.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:48.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.024][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:48.025][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:15:48.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.028][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:48.031][private$selectByRange] Filtering on field "molecular.mass", with range: [169.002, 169.042].
biodb.DEBUG[2025-08-26 05:15:48.034][private$selectByRange] 1 values to filter on field molecular.mass.
biodb.TRACE[2025-08-26 05:15:48.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.095][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.099][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:48.102][private$selectByRange] Filtering on field "monoisotopic.mass", with range: [168.972, 168.97202].
biodb.DEBUG[2025-08-26 05:15:48.105][private$selectByRange] 13 values to filter on field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:15:48.147][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:48.172][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:48.174][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:48.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.178][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.193][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:48.195][private$selectByRange] Filtering on field "monoisotopic.mass", with range: [168.972, 168.97202].
biodb.DEBUG[2025-08-26 05:15:48.198][private$selectByRange] 1 values to filter on field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:15:48.242][private$selectBySubstring] 13 values to filter on field name.
biodb.TRACE[2025-08-26 05:15:48.245][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:15:48.247][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:15:48.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:15:48.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.253][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.256][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:15:48.266][private$selectByRange] Filtering on field "monoisotopic.mass", with range: [168.972, 168.97204].
biodb.DEBUG[2025-08-26 05:15:48.269][private$selectByRange] 1 values to filter on field monoisotopic.mass.
biodb.TRACE[2025-08-26 05:15:48.300][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-26 05:15:48.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-26 05:15:48.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:15:48.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:16:32.201][biodb::testThat]
biodb.INFO [2025-08-26 05:16:32.280][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-26 05:16:32.288][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:32.290][biodb::testThat]
biodb.TRACE[2025-08-26 05:16:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 05:16:32.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 05:16:32.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:32.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.357][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:47.362][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.364][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.367][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.370][private$selectByRange] Filtering on field "molecular.mass", with range: [169.002, 169.022].
biodb.DEBUG[2025-08-26 05:16:47.373][private$selectByRange] 13 values to filter on field molecular.mass.
biodb.DEBUG[2025-08-26 05:16:47.378][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:16:47.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.390][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:47.392][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.401][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.408][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.410][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:16:47.411][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:16:47.413][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:16:47.415][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.417][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.419][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.424][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.426][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.431][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.433][private$organizeFieldsByGroups] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.434][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.436][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.441][private$organizeFieldsByGroups] Groups [2]: "comp.csv.file.id, list()"
biodb.TRACE[2025-08-26 05:16:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.450][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.457][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.465][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [comp.csv.file.id] [1018].
biodb.DEBUG[2025-08-26 05:16:47.467][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:16:47.468][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:16:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.614][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:47.618][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.620][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.623][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.625][private$selectByRange] Filtering on field "monoisotopic.mass", with range: [168.96201, 168.98201].
biodb.DEBUG[2025-08-26 05:16:47.628][private$selectByRange] 13 values to filter on field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:16:47.632][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:16:47.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.678][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:47.680][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.686][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.697][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.699][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:16:47.700][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:16:47.702][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:16:47.703][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.705][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.707][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.712][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.713][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.718][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.720][private$organizeFieldsByGroups] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.721][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.723][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.727][private$organizeFieldsByGroups] Groups [2]: "comp.csv.file.id, list()"
biodb.TRACE[2025-08-26 05:16:47.729][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.736][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.742][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.749][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [comp.csv.file.id] [1018].
biodb.DEBUG[2025-08-26 05:16:47.751][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:16:47.752][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:16:47.766][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-26 05:16:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-26 05:16:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:16:47.777][biodb::testThat]
biodb.INFO [2025-08-26 05:16:47.779][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-26 05:16:47.780][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:47.782][biodb::testThat]
biodb.TRACE[2025-08-26 05:16:47.788][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 05:16:47.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 05:16:47.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.830][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:47.834][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:47.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.855][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.858][private$selectByRange] Filtering on field "molecular.mass", with range: [169.00946482, 169.01453518].
biodb.DEBUG[2025-08-26 05:16:47.861][private$selectByRange] 13 values to filter on field molecular.mass.
biodb.DEBUG[2025-08-26 05:16:47.865][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:16:47.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:16:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.881][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.887][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.888][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:16:47.889][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:16:47.891][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:16:47.892][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.894][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.896][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.900][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.902][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.907][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.908][private$organizeFieldsByGroups] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:47.910][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.912][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.916][private$organizeFieldsByGroups] Groups [2]: "comp.csv.file.id, list()"
biodb.TRACE[2025-08-26 05:16:47.918][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:47.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.937][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [comp.csv.file.id] [1018].
biodb.DEBUG[2025-08-26 05:16:47.939][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:16:47.941][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:16:47.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:47.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:47.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:47.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:47.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:47.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:47.992][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:47.996][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:47.998][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.001][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.004][private$selectByRange] Filtering on field "monoisotopic.mass", with range: [168.96947541985, 168.97454458015].
biodb.DEBUG[2025-08-26 05:16:48.007][private$selectByRange] 13 values to filter on field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:16:48.011][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:16:48.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:16:48.021][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.027][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.034][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.036][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:16:48.037][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:16:48.039][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:16:48.041][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.042][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.044][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.048][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.050][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.055][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.057][private$organizeFieldsByGroups] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.058][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.060][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.065][private$organizeFieldsByGroups] Groups [2]: "comp.csv.file.id, list()"
biodb.TRACE[2025-08-26 05:16:48.067][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.074][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.080][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.087][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [comp.csv.file.id] [1018].
biodb.DEBUG[2025-08-26 05:16:48.089][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:16:48.090][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:16:48.102][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-26 05:16:48.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-26 05:16:48.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:16:48.113][biodb::testThat]
biodb.INFO [2025-08-26 05:16:48.115][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-26 05:16:48.116][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:48.118][biodb::testThat]
biodb.TRACE[2025-08-26 05:16:48.122][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 05:16:48.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 05:16:48.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.166][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:48.170][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.171][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:16:48.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.174][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.177][private$selectByRange] Filtering on field "molecular.mass", with range: [169.002, 169.022].
biodb.DEBUG[2025-08-26 05:16:48.180][private$selectByRange] 13 values to filter on field molecular.mass.
biodb.DEBUG[2025-08-26 05:16:48.183][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:16:48.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:16:48.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.200][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.207][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.208][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:16:48.210][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:16:48.211][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:16:48.213][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.214][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.216][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.221][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.222][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.225][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.227][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.228][private$organizeFieldsByGroups] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.230][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.231][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.236][private$organizeFieldsByGroups] Groups [2]: "comp.csv.file.id, list()"
biodb.TRACE[2025-08-26 05:16:48.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.244][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.257][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [comp.csv.file.id] [1018].
biodb.DEBUG[2025-08-26 05:16:48.258][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:16:48.260][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:16:48.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:16:48.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.331][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:16:48.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.334][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.337][private$selectByRange] Filtering on field "monoisotopic.mass", with range: [168.96201, 168.98201].
biodb.DEBUG[2025-08-26 05:16:48.339][private$selectByRange] 13 values to filter on field monoisotopic.mass.
biodb.DEBUG[2025-08-26 05:16:48.343][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:16:48.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:16:48.352][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.358][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.364][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.365][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:16:48.367][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-26 05:16:48.368][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:16:48.369][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.371][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.373][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.377][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.378][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.383][private$selectFields] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.384][private$organizeFieldsByGroups] Fields [1]: "comp.csv.file.id"
biodb.TRACE[2025-08-26 05:16:48.385][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.387][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.391][private$organizeFieldsByGroups] Groups [2]: "comp.csv.file.id, list()"
biodb.TRACE[2025-08-26 05:16:48.393][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.399][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.405][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.411][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [comp.csv.file.id] [1018].
biodb.DEBUG[2025-08-26 05:16:48.413][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:16:48.414][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:16:48.442][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-26 05:16:48.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-26 05:16:48.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:16:48.453][biodb::testThat]
biodb.INFO [2025-08-26 05:16:48.454][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-26 05:16:48.456][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:48.457][biodb::testThat]
biodb.DEBUG[2025-08-26 05:16:48.460][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-26 05:16:48.461][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:16:48.467][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399.
biodb.DEBUG[2025-08-26 05:16:48.470][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:16:48.471][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2025-08-26 05:16:48.481][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:16:48.482][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:16:48.483][private$doGetEntryContentFromDb] Entry id: WRONGA
biodb.DEBUG[2025-08-26 05:16:48.488][private$doGetEntryContentFromDb] Content of first entry: NA
fscache.INFO [2025-08-26 05:16:48.490][cch$saveContents] Save 1 contents to /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399.
biodb.DEBUG[2025-08-26 05:16:48.491][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:16:48.493][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:16:48.494][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:16:48.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:16:48.504][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.509][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.548][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 05:16:48.549][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-26 05:16:48.560][biodb::testThat]
biodb.INFO [2025-08-26 05:16:48.562][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-26 05:16:48.563][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:48.566][biodb::testThat]
biodb.DEBUG[2025-08-26 05:16:48.580][function(conn, opt)] IDS: [3]: "WRONGB, 1018, 15939"
biodb.DEBUG[2025-08-26 05:16:48.582][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-08-26 05:16:48.583][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:16:48.585][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399.
biodb.DEBUG[2025-08-26 05:16:48.587][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:16:48.588][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2025-08-26 05:16:48.590][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:16:48.591][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:16:48.593][private$doGetEntryContentFromDb] Entry id: WRONGB
biodb.DEBUG[2025-08-26 05:16:48.597][private$doGetEntryContentFromDb] Content of first entry: NA
fscache.INFO [2025-08-26 05:16:48.600][cch$saveContents] Save 1 contents to /home/biocbuild/.cache/R/biodb/comp.csv.file-c211f93b9cb5baf8e64d4af0e0055399.
biodb.DEBUG[2025-08-26 05:16:48.601][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:16:48.603][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:16:48.605][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:16:48.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:48.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:48.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:48.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:48.612][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:48.615][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.621][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:48.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:48.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:48.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:48.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:48.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:48.664][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 05:16:48.666][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-26 05:16:48.667][function(conn, opt)] Entries: [3]: "NULL, <environment>, <environment>"
biodb.INFO [2025-08-26 05:16:48.753][biodb::testThat]
biodb.INFO [2025-08-26 05:16:48.766][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-26 05:16:48.767][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:48.773][biodb::testThat]
biodb.INFO [2025-08-26 05:16:50.649][biodb::testThat]
biodb.INFO [2025-08-26 05:16:50.673][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-26 05:16:50.675][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:50.676][biodb::testThat]
biodb.INFO [2025-08-26 05:16:50.692][biodb::testThat]
biodb.INFO [2025-08-26 05:16:50.694][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-26 05:16:50.695][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:50.697][biodb::testThat]
biodb.INFO [2025-08-26 05:16:50.735][biodb::testThat]
biodb.INFO [2025-08-26 05:16:50.737][biodb::testThat] Running test function  test.db.editing  (" We can edit a database. ").
biodb.INFO [2025-08-26 05:16:50.739][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:50.740][biodb::testThat]
biodb.DEBUG[2025-08-26 05:16:50.794][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:16:50.796][conn$getBiodb()$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file .
biodb.TRACE[2025-08-26 05:16:50.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:50.828][private$loadEntries] Creating entries from ids [1]: "1018".
biodb.DEBUG[2025-08-26 05:16:50.830][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 05:16:50.831][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:16:50.833][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "NA".
biodb.DEBUG[2025-08-26 05:16:50.835][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:16:50.837][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:16:50.838][private$doGetEntryContentFromDb] Entry id: 1018
biodb.INFO [2025-08-26 05:16:50.840][private$initDb] Creating empty database.
biodb.DEBUG[2025-08-26 05:16:50.842][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:16:50.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:50.850][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:16:50.853][private$doGetEntryContentFromDb] Content of first entry: NA
biodb.DEBUG[2025-08-26 05:16:50.855][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:16:50.857][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:16:50.859][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:16:50.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:16:50.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:16:50.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:16:50.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:16:50.867][FUN] Functions in observer BiodbConfig: [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[2025-08-26 05:16:50.870][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:16:50.924][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 05:16:50.926][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.TRACE[2025-08-26 05:16:50.927][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.941][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:16:50.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:16:50.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:16:50.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:16:50.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:16:50.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:16:50.992][conn.2$getBiodb()$getFactory()$delet ...] Connector "comp.csv.file.1" deleted.
biodb.INFO [2025-08-26 05:16:51.000][biodb::testThat]
biodb.INFO [2025-08-26 05:16:51.001][biodb::testThat] Running test function  test.create.conn.with.same.url  (" Creating another connector with the same  URL is forbidden. ").
biodb.INFO [2025-08-26 05:16:51.003][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:51.004][biodb::testThat]
biodb.DEBUG[2025-08-26 05:16:51.026][super$initialize] Initialize connector comp.csv.file.1.
biodb.INFO [2025-08-26 05:16:51.058][biodb::testThat]
biodb.INFO [2025-08-26 05:16:51.061][biodb::testThat] Running test function  test.db.writing  (" Database writing works. ").
biodb.INFO [2025-08-26 05:16:51.062][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:16:51.064][biodb::testThat]
biodb.DEBUG[2025-08-26 05:16:51.071][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:16:51.074][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file .
biodb.ERROR[2025-08-26 05:16:51.077][private$checkWritingIsAllowed] Writing is not enabled for this database. However this database type is writable. Please call allowWriting() method to enable writing.
biodb.DEBUG[2025-08-26 05:16:53.226][biodb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:17:07.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:17:07.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:17:07.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:17:07.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:17:07.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:17:07.291][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.299][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:17:07.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:17:07.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.314][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:17:07.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:17:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.321][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:17:07.323][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:17:07.324][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:17:07.326][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:17:07.328][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:17:07.330][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.339][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.344][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.345][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.351][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.352][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.357][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.359][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.364][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.366][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.369][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.371][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.373][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.378][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.380][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.385][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.387][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.392][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:17:07.393][private$organizeFieldsByGroups] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:17:07.395][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.397][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.401][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.410][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.415][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.417][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.422][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.428][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.430][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.435][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.436][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.441][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.442][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.447][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.449][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.454][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "description", "comp.csv.file.id"), list()"
biodb.TRACE[2025-08-26 05:17:07.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.485][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.545][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.584][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.591][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.597][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.604][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.610][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.617][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.624][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.631][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.645][private$entriesToListOfDataframes] Entry converted to data frame: [1, 9]: [accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, ...] [1018, C2H8AsNO3, 168.97201, 169.012, C07279, ...].
biodb.DEBUG[2025-08-26 05:17:07.647][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:17:07.649][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-26 05:17:07.651][biodb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:17:07.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:17:07.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:17:07.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:17:07.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:17:07.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:17:07.662][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:17:07.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:17:07.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:17:07.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:17:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:17:07.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.687][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:17:07.689][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:17:07.690][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:17:07.692][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:17:07.693][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:17:07.695][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.696][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.703][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.707][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.709][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.713][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.715][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.720][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.721][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.726][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.728][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.738][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.740][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.745][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.747][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.751][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:17:07.753][private$organizeFieldsByGroups] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:17:07.754][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.761][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.763][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:07.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.775][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:07.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.783][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:07.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.787][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:07.789][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:07.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:07.799][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:07.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.804][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:07.805][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:07.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.810][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.812][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:07.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.817][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "description", "comp.csv.file.id"), list()"
biodb.TRACE[2025-08-26 05:17:07.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:07.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:17:07.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:17:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:07.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:08.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:23.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:23.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:23.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:23.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:23.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:23.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:23.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:23.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:17:23.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:23.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:23.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:23.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:23.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:23.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:23.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:23.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:23.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:24.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:17:24.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.014][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:24.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:24.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.021][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:24.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:24.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:24.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:17:24.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:24.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:24.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:24.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:17:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:17:24.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:24.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:24.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:24.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.075][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:17:24.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:17:24.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:24.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:24.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.103][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:24.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:24.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.112][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:17:24.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:17:24.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.143][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:24.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:24.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.150][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:24.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:24.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:24.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:24.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:24.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:24.241][private$entriesToListOfDataframes] Entry converted to data frame: [1, 9]: [accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, ...] [1018, C2H8AsNO3, 168.97201, 169.012, C07279, ...].
biodb.DEBUG[2025-08-26 05:17:24.394][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:17:24.413][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:17:24.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:17:27.320][private$loadEntries] Creating entries from ids [1]: "1018".
biodb.DEBUG[2025-08-26 05:17:27.323][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 05:17:27.325][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:17:27.327][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "NA".
biodb.DEBUG[2025-08-26 05:17:27.329][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:17:27.330][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:17:27.332][private$doGetEntryContentFromDb] Entry id: 1018
biodb.INFO [2025-08-26 05:17:27.334][private$initDb] Creating empty database.
biodb.DEBUG[2025-08-26 05:17:27.342][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:17:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:17:27.350][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:17:27.359][private$doGetEntryContentFromDb] Content of first entry: NA
biodb.DEBUG[2025-08-26 05:17:27.361][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:17:27.363][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:17:27.365][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:17:27.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:17:27.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:17:27.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:17:27.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:17:27.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:17:27.378][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:27.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:27.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:27.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:17:27.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:17:27.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:17:27.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:17:27.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:17:27.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:17:27.431][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 05:17:27.433][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.ERROR[2025-08-26 05:21:02.208][private$checkEditingIsAllowed] Editing is not enabled for this database. However this database type is editable. Please call allowEditing() method to enable editing.
biodb.TRACE[2025-08-26 05:21:02.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:02.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:02.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:02.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:02.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:02.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:02.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:02.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.303][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.330][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.ERROR[2025-08-26 05:21:02.482][conn.2$addNewEntry] Impossible to add entry as a new entry. The passed entry is already part of a connector.
biodb.ERROR[2025-08-26 05:21:02.522][private$checkWritingIsAllowed] Writing is not enabled for this database. However this database type is writable. Please call allowWriting() method to enable writing.
biodb.DEBUG[2025-08-26 05:21:02.547][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.comp.csv.file.db".
biodb.DEBUG[2025-08-26 05:21:02.549][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 05:21:02.551][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.ERROR[2025-08-26 05:21:02.553][private$checkWritingIsAllowed] Writing is not enabled for this database. However this database type is writable. Please call allowWriting() method to enable writing.
biodb.INFO [2025-08-26 05:21:02.569][private$doWrite] Write all entries into "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.comp.csv.file.db".
biodb.DEBUG[2025-08-26 05:21:02.583][self$getBiodb()$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:21:02.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:21:02.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:21:02.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:21:02.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:21:02.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:21:02.596][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:21:02.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:21:02.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.602][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:21:02.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:21:02.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.608][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:21:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:21:02.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.614][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:21:02.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:21:02.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.621][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:21:02.622][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:21:02.624][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:21:02.625][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:21:02.627][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:21:02.628][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:02.630][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:02.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.635][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:21:02.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:21:02.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.641][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:02.643][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:02.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.648][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:02.649][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:02.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:02.656][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:02.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.660][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:21:02.662][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:21:02.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.667][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:21:02.669][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:21:02.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.672][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.674][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:21:02.676][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:21:02.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.681][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.683][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:02.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.687][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.688][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:21:02.690][private$organizeFieldsByGroups] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:21:02.692][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:02.694][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:02.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.699][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:21:02.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:21:02.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.705][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:02.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:02.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.712][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:02.714][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:02.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:02.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:02.718][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.020][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:21:25.049][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:21:25.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:21:25.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:21:25.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.063][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:21:25.065][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:21:25.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.070][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.073][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.079][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "description", "comp.csv.file.id"), list()"
biodb.TRACE[2025-08-26 05:21:25.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:25.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:25.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:25.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:25.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:21:25.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:21:25.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:21:25.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:21:25.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:21:25.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:21:25.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:25.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:25.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:25.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:25.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:25.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:21:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:25.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:25.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:25.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:25.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:25.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:21:25.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.210][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.218][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:21:25.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:21:25.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:21:25.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:21:25.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:21:25.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:21:25.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:21:25.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:21:25.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:21:25.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:21:25.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:21:25.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.266][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:21:25.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:21:25.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.273][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:21:25.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:21:25.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:21:25.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:21:25.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.288][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:21:25.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:21:25.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.303][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.311][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:21:25.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.357][private$entriesToListOfDataframes] Entry converted to data frame: [1, 9]: [accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, ...] [1018, C2H8AsNO3, 168.97201, 169.012, C07279, ...].
biodb.DEBUG[2025-08-26 05:21:25.359][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:21:25.365][self$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:21:25.798][biodb$getFactory()$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.DEBUG[2025-08-26 05:21:25.831][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:21:25.890][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.comp.csv.file.db".
biodb.TRACE[2025-08-26 05:21:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:25.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:25.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:25.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:25.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:21:25.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:21:25.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:21:25.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:21:26.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:21:26.121][private$loadEntries] Creating entries from ids [1]: "1018".
biodb.DEBUG[2025-08-26 05:21:26.123][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:23:00.733][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-e87d57f68378b4842864dc2a2d328fd8.
fscache.DEBUG[2025-08-26 05:23:01.139][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/comp.csv.file-e87d57f68378b4842864dc2a2d328fd8/1018.tsv.
biodb.DEBUG[2025-08-26 05:23:01.577][conn$getEntryContent] 1 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:23:01.597][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:23:01.600][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:23:01.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:23:01.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:23:01.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:23:01.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:23:01.622][FUN] Functions in observer BiodbConfig: [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 [2025-08-26 05:23:01.643][private$initDb] Loading file database "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.comp.csv.file.db".
biodb.DEBUG[2025-08-26 05:23:01.654][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:23:01.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.663][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.666][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:23:01.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:23:01.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:23:01.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.675][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.675][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.677][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.686][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.686][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.686][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.689][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.698][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.698][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.698][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.698][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.700][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.702][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.709][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.709][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.709][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.709][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.709][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.711][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:23:01.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:23:01.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:23:01.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.720][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.720][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.720][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.720][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.720][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.720][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.722][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:23:01.724][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:23:01.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:23:01.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.732][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.735][self$setField] Set field description to column(s) description.
biodb.TRACE[2025-08-26 05:23:01.737][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:23:01.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:23:01.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.744][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.747][self$setField] Set field comp.csv.file.id to column(s) comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.749][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.756][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.761][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.763][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.765][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.767][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.771][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.773][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 05:23:01.774][self$setPropertyValue] Setting property "parsing.expr" to "comp.csv.file.id".
biodb.TRACE[2025-08-26 05:23:01.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:23:01.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:23:01.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:23:01.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:23:01.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:23:01.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:23:01.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.841][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.848][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:23:01.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:23:01.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:23:01.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:23:01.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:23:01.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:23:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:23:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:23:01.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:23:01.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.883][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:23:01.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:23:01.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:01.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:01.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:01.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:01.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:01.981][self$createEntryFromContent] Accession numbers: 1018.
biodb.INFO [2025-08-26 05:23:01.986][biodb$getFactory()$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.INFO [2025-08-26 05:23:02.042][biodb::testThat]
biodb.INFO [2025-08-26 05:23:02.044][biodb::testThat] Running test function  test.db.writing.with.col.add  (" We can write entries having new fields. ").
biodb.INFO [2025-08-26 05:23:02.046][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:23:02.047][biodb::testThat]
biodb.DEBUG[2025-08-26 05:23:02.063][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:23:02.113][conn$getBiodb()$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.with.col.add.comp.csv.file.db".
biodb.TRACE[2025-08-26 05:23:02.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:02.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:02.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:02.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:02.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:02.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:02.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:02.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:02.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:02.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:02.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:02.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:02.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:02.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:02.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:02.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:02.141][private$loadEntries] Creating entries from ids [1]: "1018".
biodb.DEBUG[2025-08-26 05:23:02.143][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:23:02.201][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-58b53339a72d6fb04377c450d1eec6ae.
biodb.DEBUG[2025-08-26 05:23:02.349][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:23:02.421][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.with.col.add.comp.csv.file.db".
biodb.DEBUG[2025-08-26 05:23:02.594][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:23:39.662][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:23:39.664][private$doGetEntryContentFromDb] Entry id: 1018
biodb.INFO [2025-08-26 05:23:39.673][private$initDb] Creating empty database.
biodb.DEBUG[2025-08-26 05:23:39.676][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:23:39.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:39.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:39.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:39.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:39.685][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:23:39.692][private$doGetEntryContentFromDb] Content of first entry: NA
fscache.INFO [2025-08-26 05:23:39.779][cch$saveContents] Save 1 contents to /home/biocbuild/.cache/R/biodb/comp.csv.file-58b53339a72d6fb04377c450d1eec6ae.
biodb.DEBUG[2025-08-26 05:23:39.829][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:23:39.869][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:23:39.901][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:23:39.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:23:39.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:23:39.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:23:39.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:23:39.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:23:40.069][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:40.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:40.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:40.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:40.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:40.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:40.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:40.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:40.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:40.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:23:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:23:40.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:23:40.248][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 05:23:40.249][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.TRACE[2025-08-26 05:23:40.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.259][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.266][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:23:40.274][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:23:40.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:23:40.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:31:56.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:31:56.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:31:56.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:31:56.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:31:56.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:31:56.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:31:56.314][conn.2$getBiodb()$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:31:56.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:31:56.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:31:56.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:31:56.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:31:56.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:31:56.328][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:31:56.330][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:31:56.331][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:31:56.333][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:31:56.335][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:31:56.337][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:31:56.339][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:31:56.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.351][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:31:56.353][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:31:56.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.358][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:31:56.360][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:31:56.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.365][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:31:56.367][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:31:56.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.376][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:31:56.378][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:31:56.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.382][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:31:56.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:31:56.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.389][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:31:56.396][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:31:56.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.405][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:31:56.407][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:31:56.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.416][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:31:56.422][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:31:56.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:31:56.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:31:56.431][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:32:16.564][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:37:13.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.817][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:37:13.820][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:37:13.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.825][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:37:13.827][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:37:13.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.832][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:37:13.834][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:37:13.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:37:13.840][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:37:13.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.845][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:37:13.846][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:37:13.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.851][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:37:13.853][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:37:13.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.857][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:37:13.859][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:37:13.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.864][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:37:13.865][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:37:13.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:37:13.871][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:37:13.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.877][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:37:13.878][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:37:13.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.891][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:37:13.897][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:37:13.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:37:13.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:37:13.907][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:40:48.049][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:40:48.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:40:48.110][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:40:48.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.116][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:40:48.122][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:40:48.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.132][private$selectFields] Fields [6]: "accession, formula, monoisotopic.mass, molecular.mass, smiles, description"
biodb.TRACE[2025-08-26 05:40:48.138][private$organizeFieldsByGroups] Fields [6]: "accession, formula, monoisotopic.mass, molecular.mass, smiles, description"
biodb.TRACE[2025-08-26 05:40:48.139][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:40:48.160][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:40:48.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.166][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:40:48.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:40:48.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:40:48.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:40:48.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.197][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:40:48.205][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:40:48.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.214][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:40:48.216][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:40:48.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.224][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.230][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:40:48.231][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:40:48.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.391][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "smiles", "description"), list()"
biodb.TRACE[2025-08-26 05:40:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:40:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:40:48.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:40:48.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:40:48.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:41:07.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:41:07.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:41:07.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:41:07.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:41:07.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:41:07.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.342][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:41:07.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:41:07.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:41:07.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:41:07.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:41:07.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:41:07.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:41:07.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:41:07.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:41:07.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:41:07.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:41:07.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:41:07.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:41:07.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:41:07.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:41:07.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:41:07.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.406][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:41:07.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:41:07.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:41:07.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:41:07.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:41:07.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:41:07.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.426][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:41:07.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:41:07.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.432][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:41:07.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:41:07.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.439][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:41:07.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:41:07.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:41:07.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:41:07.480][private$entriesToListOfDataframes] Entry converted to data frame: [1, 6]: [accession, formula, monoisotopic.mass, molecular.mass, smiles, ...] [1018, C2H8AsNO3, 168.97201, 169.012, NCC[As](O)(O)=O, ...].
biodb.DEBUG[2025-08-26 05:41:07.909][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:45:12.069][conn.2$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-26 05:45:12.101][fields.def$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:45:12.104][fields.def$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:45:12.106][fields.def$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.108][fields.def$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:45:12.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:45:12.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:45:12.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:45:12.131][self$getBiodb()$getEntryFields()$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:45:12.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:45:12.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:45:12.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:45:12.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:45:12.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:45:12.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:45:12.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:45:12.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:45:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:45:12.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:45:12.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:45:12.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:45:12.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:45:12.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:45:12.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:45:12.173][private$loadEntries] Creating entries from ids [1]: "anewentry".
biodb.DEBUG[2025-08-26 05:45:12.175][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:45:12.249][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-58b53339a72d6fb04377c450d1eec6ae.
biodb.DEBUG[2025-08-26 05:46:41.352][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:48:37.372][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.with.col.add.comp.csv.file.db".
biodb.DEBUG[2025-08-26 05:48:37.380][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:48:37.382][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:48:37.383][private$doGetEntryContentFromDb] Entry id: anewentry
biodb.DEBUG[2025-08-26 05:48:37.387][private$doGetEntryContentFromDb] Content of first entry: NA
fscache.INFO [2025-08-26 05:48:37.411][cch$saveContents] Save 1 contents to /home/biocbuild/.cache/R/biodb/comp.csv.file-58b53339a72d6fb04377c450d1eec6ae.
biodb.DEBUG[2025-08-26 05:48:37.414][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 05:48:37.417][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:48:37.420][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:48:37.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:48:37.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:48:37.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:48:37.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:48:37.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:48:37.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:48:37.498][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 05:48:37.499][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.TRACE[2025-08-26 05:48:37.501][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.507][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.514][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.520][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.545][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 05:48:37.552][private$doWrite] Write all entries into "/home/biocbuild/bbs-3.22-bioc/meat/biodb.Rcheck/tests/testthat/output/test.db.writing.with.col.add.comp.csv.file.db".
biodb.DEBUG[2025-08-26 05:48:37.555][self$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-26 05:48:37.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:48:37.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:48:37.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:48:37.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:48:37.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 05:48:37.566][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.571][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.577][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:48:37.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:48:37.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:48:37.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:48:37.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.590][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:48:37.591][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:48:37.592][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:48:37.594][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:48:37.595][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:48:37.597][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.603][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:37.604][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:37.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.615][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.617][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.621][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.625][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.627][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:37.629][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:37.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:37.634][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:37.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.639][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:37.640][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:37.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.645][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.646][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.651][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:48:37.652][private$organizeFieldsByGroups] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:48:37.654][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.655][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.660][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:37.661][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:37.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.672][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.678][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.679][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.684][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:37.686][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:37.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.690][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:37.692][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:37.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.696][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:37.697][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:37.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.702][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.703][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.708][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "description", "comp.csv.file.id"), list()"
biodb.TRACE[2025-08-26 05:48:37.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:37.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:37.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:37.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.738][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:37.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:37.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.779][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.784][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:37.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:37.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:37.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:37.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:37.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:37.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:37.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:37.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.831][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:37.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:37.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.837][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:37.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:37.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:37.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:37.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.849][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.860][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.874][private$entriesToListOfDataframes] Entry converted to data frame: [1, 9]: [accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, ...] [1018, C2H8AsNO3, 168.97201, 169.012, C07279, ...].
biodb.DEBUG[2025-08-26 05:48:37.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:48:37.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:48:37.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:48:37.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:48:37.881][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.TRACE[2025-08-26 05:48:37.884][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.889][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:48:37.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.895][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:48:37.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:48:37.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.901][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:48:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:48:37.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.907][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:48:37.908][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:48:37.910][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:48:37.911][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:48:37.912][private$selectFields] Fields [10]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id, aa.seq"
biodb.TRACE[2025-08-26 05:48:37.914][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.915][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.918][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.920][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:37.921][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:37.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.925][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.927][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:37.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.931][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.933][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:37.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.937][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.939][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:37.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.944][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:37.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:37.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.951][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:37.952][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:37.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.958][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:37.960][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:37.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.964][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.966][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:37.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.971][ef$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:48:37.973][ef$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:48:37.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:37.977][private$selectFields] Fields [10]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id, aa.seq"
biodb.TRACE[2025-08-26 05:48:37.979][private$organizeFieldsByGroups] Fields [10]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, description, comp.csv.file.id, aa.seq"
biodb.TRACE[2025-08-26 05:48:37.981][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:48:37.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:48:37.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:37.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.182][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:48:40.217][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:48:40.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.223][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:40.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:48:40.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.231][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:40.233][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:48:40.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.238][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:40.244][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:48:40.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.278][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:48:40.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:48:40.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.294][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:48:40.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:48:40.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.329][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:48:40.332][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:48:40.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.469][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:40.470][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:48:40.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:48:40.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:48:40.475][ef$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:48:40.481][ef$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:48:40.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.192][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "description", "comp.csv.file.id", "aa.seq"), list()"
biodb.TRACE[2025-08-26 05:49:03.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:49:03.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:49:03.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:49:03.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:49:03.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:49:03.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:49:03.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.219][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:49:03.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:49:03.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.226][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:49:03.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:49:03.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:49:03.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:49:03.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:03.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:03.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:03.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:03.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:03.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:03.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:03.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:03.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:03.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:03.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:03.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:03.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.291][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:03.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.320][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:03.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:03.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:03.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:03.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:49:03.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:49:03.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:49:03.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:49:03.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:49:03.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:49:03.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:49:03.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:49:03.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:49:03.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:49:03.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.393][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:49:03.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:49:03.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.400][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:49:03.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:49:03.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.424][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:49:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:49:03.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.435][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 05:49:03.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 05:49:03.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.442][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:49:03.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:49:03.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:49:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:49:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:49:03.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:49:03.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.462][self$getBiodb()$getEntryFields()$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:49:03.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:49:03.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.468][self$getBiodb()$getEntryFields()$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:49:03.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:49:03.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.475][self$getBiodb()$getEntryFields()$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 05:49:03.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 05:49:03.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:03.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:03.511][private$entriesToListOfDataframes] Entry converted to data frame: [1, 10]: [accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, ...] [anewentry, C2H8AsNO3, 168.97201, 169.012, C07279, ...].
biodb.DEBUG[2025-08-26 05:49:03.530][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2025-08-26 05:49:03.531][self$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2025-08-26 05:49:03.550][conn.2$getBiodb()$getFactory()$delet ...] Connector "comp.csv.file.1" deleted.
biodb.TRACE[2025-08-26 05:49:32.875][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:49:32.899][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:49:32.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:32.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:49:32.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:32.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:32.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:32.942][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 05:49:32.951][biodb::testThat]
biodb.INFO [2025-08-26 05:49:32.953][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-26 05:49:32.957][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:49:32.959][biodb::testThat]
biodb.ERROR[2025-08-26 05:49:33.141][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-26 05:49:33.215][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-26 05:49:33.241][biodb::testContext]
biodb.INFO [2025-08-26 05:49:33.243][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:49:33.245][biodb::testContext] Test context - CompCsvFile specific tests
biodb.INFO [2025-08-26 05:49:33.246][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 05:49:33.248][biodb::testContext]
biodb.INFO [2025-08-26 05:49:33.254][biodb::testThat]
biodb.INFO [2025-08-26 05:49:33.256][biodb::testThat] Running test function  test_unmapped_col  (" We receive a warning for unmapped columns. ").
biodb.INFO [2025-08-26 05:49:33.258][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:49:33.260][biodb::testThat]
biodb.DEBUG[2025-08-26 05:49:33.271][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:49:33.293][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.INFO [2025-08-26 05:49:33.310][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.DEBUG[2025-08-26 05:49:33.350][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:49:33.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:49:33.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:49:33.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:33.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:49:33.370][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.WARN [2025-08-26 05:49:33.372][private$autoSetFields] Column "elecCharge" does not match any biodb field.
biodb.DEBUG[2025-08-26 05:49:33.384][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:49:33.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:49:33.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:49:33.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:33.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:49:33.396][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:49:33.396][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:49:33.398][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:33.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:33.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:49:33.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:33.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:49:33.409][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:49:33.409][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:49:33.409][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:49:33.411][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:49:33.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:33.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:49:33.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:33.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:49:33.419][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:49:33.419][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:49:33.419][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:49:33.419][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:49:33.420][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:33.422][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:33.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:49:33.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:49:33.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:49:33.625][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:49:33.625][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:49:33.625][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:49:33.625][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:49:33.625][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:53:31.616][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:53:34.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:53:34.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:53:34.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:53:34.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:53:34.408][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:53:34.408][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:53:34.408][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:53:34.408][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:53:34.408][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:53:34.408][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:53:34.411][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:53:34.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:53:34.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:53:34.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:53:34.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:53:34.420][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.INFO [2025-08-26 05:54:48.160][self$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.DEBUG[2025-08-26 05:54:48.260][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:54:48.320][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.INFO [2025-08-26 05:54:48.338][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.DEBUG[2025-08-26 05:54:48.380][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:54:48.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:54:48.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:54:48.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.395][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.398][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:54:48.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:54:48.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:54:48.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.407][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.407][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.409][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:54:48.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:54:48.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:54:48.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.420][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.420][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.420][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.423][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:54:48.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:54:48.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:54:48.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.432][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.432][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.432][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.432][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.434][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:54:48.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:54:48.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:54:48.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.445][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.445][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.445][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.445][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.445][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:54:48.447][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:54:48.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:54:48.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:54:48.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.461][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.461][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.461][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.461][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.461][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:54:48.461][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:54:48.463][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:54:48.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:54:48.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:54:48.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:54:48.471][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.INFO [2025-08-26 05:54:48.475][self$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.DEBUG[2025-08-26 05:54:48.483][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:54:48.531][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.INFO [2025-08-26 05:54:48.550][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.DEBUG[2025-08-26 05:54:48.566][conn$setField] Set field charge to column(s) elecCharge.
biodb.TRACE[2025-08-26 05:54:48.569][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 05:54:48.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 05:54:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.577][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.579][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:54:48.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:54:48.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:54:48.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.594][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.594][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.601][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:54:48.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:54:48.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:54:48.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.613][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.613][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.613][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.615][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:54:48.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:54:48.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:54:48.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.625][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.625][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.625][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.625][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.630][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:54:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:54:48.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:54:48.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.640][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.640][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.640][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.640][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.640][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.643][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:54:48.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:54:48.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:54:48.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.656][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.656][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.656][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.656][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.656][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.656][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:54:48.658][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:54:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:54:48.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:54:48.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:54:48.682][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:54:48.686][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:54:48.688][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:54:48.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:54:48.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:54:48.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:54:48.696][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.INFO [2025-08-26 05:54:48.718][self$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.INFO [2025-08-26 05:54:48.754][biodb::testThat]
biodb.INFO [2025-08-26 05:54:48.756][biodb::testThat] Running test function  test.comp.csv.file.dynamic.field.set  (" We can define a new field even after loading an entry. ").
biodb.INFO [2025-08-26 05:54:48.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 05:54:48.776][biodb::testThat]
biodb.DEBUG[2025-08-26 05:54:48.787][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 05:54:48.807][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.DEBUG[2025-08-26 05:54:48.810][private$loadEntries] Creating entries from ids [1]: "1932".
biodb.DEBUG[2025-08-26 05:54:48.812][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:54:48.929][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-eab45c00dc48497fd7e945fced6c5c0a.
fscache.DEBUG[2025-08-26 05:55:58.634][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/comp.csv.file-eab45c00dc48497fd7e945fced6c5c0a/1932.tsv.
biodb.DEBUG[2025-08-26 05:56:03.189][conn$getEntryContent] 1 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:56:03.217][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 05:56:03.219][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 05:56:03.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 05:56:03.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 05:56:03.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 05:56:03.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 05:56:03.233][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.INFO [2025-08-26 05:56:03.248][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.DEBUG[2025-08-26 05:56:03.259][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2025-08-26 05:56:03.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.272][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.WARN [2025-08-26 05:56:03.275][private$autoSetFields] Column "elecCharge" does not match any biodb field.
biodb.DEBUG[2025-08-26 05:56:03.278][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 05:56:03.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:56:03.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:56:03.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.289][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.289][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.291][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.302][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.302][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.302][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.304][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.313][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.313][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.313][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.313][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.315][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.318][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.327][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.327][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.327][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.327][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.327][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.330][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 05:56:03.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:56:03.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:56:03.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.341][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.341][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.341][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.341][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.341][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.341][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.365][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 05:56:03.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:56:03.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:56:03.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.377][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.379][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.382][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.384][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.386][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.387][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.390][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:56:03.392][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.TRACE[2025-08-26 05:56:03.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:56:03.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:56:03.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:56:03.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:56:03.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:56:03.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:56:03.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.458][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.468][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:56:03.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:56:03.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:56:03.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:56:03.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:56:03.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:56:03.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:56:03.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.501][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:56:03.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:56:03.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.544][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:56:03.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:56:03.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.559][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:56:03.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:56:03.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.581][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:56:03.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:56:03.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:56:03.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:56:03.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:56:03.680][self$createEntryFromContent] Accession numbers: 1932.
biodb.TRACE[2025-08-26 05:56:03.688][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:56:03.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:56:03.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 05:56:03.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 05:56:03.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:56:03.709][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 05:56:03.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 05:56:03.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:56:03.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.007][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 05:57:13.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 05:57:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.060][private$selectFields] Fields none
biodb.TRACE[2025-08-26 05:57:13.062][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 05:57:13.064][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 05:57:13.086][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 05:57:13.087][private$selectFields] Fields [8]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:57:13.089][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:57:13.091][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:57:13.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.109][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:57:13.111][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:57:13.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.142][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:57:13.151][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:57:13.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.155][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:57:13.157][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:57:13.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:57:13.166][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:57:13.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.195][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:57:13.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:57:13.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:57:13.203][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:57:13.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.212][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:57:13.237][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:57:13.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.244][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:57:13.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:57:13.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.272][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:57:13.275][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:57:13.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:57:13.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:57:13.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.306][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:57:13.315][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:57:13.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.329][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:57:13.332][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:57:13.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.344][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:57:13.346][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:57:13.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.375][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:57:13.385][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:57:13.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:57:13.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:57:13.471][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:01.096][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:01.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.125][private$selectFields] Fields [8]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:59:01.130][private$organizeFieldsByGroups] Fields [8]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, comp.csv.file.id"
biodb.TRACE[2025-08-26 05:59:01.131][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:59:01.134][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:59:01.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.152][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:59:01.154][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:59:01.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.207][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.229][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:01.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:01.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.247][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:01.261][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:01.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.285][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:59:01.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:59:01.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:59:01.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:59:01.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.310][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.312][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:01.318][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:01.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.325][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.333][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "comp.csv.file.id"), list()"
biodb.TRACE[2025-08-26 05:59:01.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:59:01.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:59:01.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:59:01.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:59:01.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 05:59:01.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 05:59:01.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:59:01.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:59:01.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.394][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:59:01.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:59:01.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 05:59:01.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 05:59:01.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 05:59:01.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:01.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:01.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:13.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:13.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:13.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:13.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:13.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 05:59:13.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.835][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:13.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:13.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.844][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:13.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:13.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:13.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 05:59:13.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.861][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:59:13.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:59:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:59:13.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:59:13.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 05:59:13.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 05:59:13.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:59:13.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:59:13.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:59:13.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:59:13.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 05:59:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 05:59:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:13.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:13.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.908][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:13.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:13.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 05:59:13.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:13.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 05:59:13.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:13.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:59:14.091][conn$setField] Set field charge to column(s) elecCharge.
biodb.TRACE[2025-08-26 05:59:14.264][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 05:59:14.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 05:59:14.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 05:59:14.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 05:59:14.274][self$setPropertyValue] Setting property "parsing.expr" to "elecCharge".
biodb.DEBUG[2025-08-26 05:59:14.299][private$loadEntries] Creating entries from ids [1]: "1932".
biodb.DEBUG[2025-08-26 05:59:14.301][conn$getEntryContent] Get Compound CSV File entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 05:59:14.304][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.csv.file-eab45c00dc48497fd7e945fced6c5c0a.
biodb.DEBUG[2025-08-26 05:59:14.307][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 05:59:14.309][conn$getEntryContent] 1 entry content(s) need to be fetched from Compound CSV File database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_with_unknown_column.tsv".
biodb.DEBUG[2025-08-26 05:59:14.311][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-26 05:59:14.312][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-26 05:59:14.314][private$doGetEntryContentFromDb] Entry id: 1932
biodb.DEBUG[2025-08-26 05:59:14.357][private$doGetEntryContentFromDb] Content of first entry: accession	elecCharge	formula	monoisotopic.mass	molecular.mass	kegg.compound.id	name	smiles
1932	0	C6H6NR	92.05002	92.119	C03084	4-Substituted aniline	Nc1ccc([*])cc1
fscache.INFO [2025-08-26 06:02:18.554][cch$saveContents] Save 1 contents to /home/biocbuild/.cache/R/biodb/comp.csv.file-eab45c00dc48497fd7e945fced6c5c0a.
biodb.DEBUG[2025-08-26 06:02:18.587][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-26 06:02:18.590][self$createEntryFromContent] Creating Compound CSV File entries from 1 content(s).
biodb.DEBUG[2025-08-26 06:02:18.593][self$createEntryFromContent] Parsing 1 Compound CSV File entries.
biodb.DEBUG[2025-08-26 06:02:18.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 06:02:18.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:02:18.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:02:18.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:02:18.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 06:02:18.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:18.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:18.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:18.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:18.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:18.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:18.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.637][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:18.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:18.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:18.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:18.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:18.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:18.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:18.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:18.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:18.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:18.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.696][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:18.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:18.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.703][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:18.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:18.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:18.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:18.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.725][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:18.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:18.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:18.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:18.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.741][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:18.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:18.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.786][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:18.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:18.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:18.809][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:18.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:18.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:18.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.766][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:22.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:22.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.804][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:22.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:22.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:22.878][self$createEntryFromContent] Accession numbers: 1932.
biodb.TRACE[2025-08-26 06:02:22.883][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 06:02:22.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 06:02:22.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.893][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 06:02:22.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 06:02:22.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.900][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 06:02:22.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 06:02:22.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.907][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 06:02:22.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 06:02:22.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.914][private$selectFields] Fields none
biodb.TRACE[2025-08-26 06:02:22.915][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-26 06:02:22.917][private$selectFields] Fields is null: TRUE
biodb.TRACE[2025-08-26 06:02:22.918][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-26 06:02:22.920][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, charge, comp.csv.file.id"
biodb.TRACE[2025-08-26 06:02:22.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.928][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:22.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:22.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.934][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.935][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:22.937][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:22.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.942][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:22.943][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:22.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:22.951][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:22.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.956][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:22.958][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:22.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:22.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:22.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.971][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:22.973][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:22.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.978][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:22.980][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:22.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.985][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:22.987][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:22.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.992][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:22.994][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:22.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:22.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:22.999][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:23.001][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:23.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:23.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:23.006][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:23.008][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:23.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:23.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:23.013][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:23.014][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:23.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:23.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:23.021][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:24.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:29.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.047][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:49.049][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:49.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.054][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:49.056][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:49.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.061][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.063][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.068][private$selectFields] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, charge, comp.csv.file.id"
biodb.TRACE[2025-08-26 06:02:49.070][private$organizeFieldsByGroups] Fields [9]: "accession, formula, monoisotopic.mass, molecular.mass, kegg.compound.id, name, smiles, charge, comp.csv.file.id"
biodb.TRACE[2025-08-26 06:02:49.071][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:49.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:49.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.079][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:49.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:49.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.088][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.093][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.095][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.100][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.102][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.107][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:49.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:49.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.114][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:49.116][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:49.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.121][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:49.123][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:49.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.126][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.128][ef$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.130][ef$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.135][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula", "monoisotopic.mass", "molecular.mass", "kegg.compound.id", "name", "smiles", "charge", "comp.csv.file.id"), list()"
biodb.TRACE[2025-08-26 06:02:49.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:49.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:49.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:49.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:49.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:49.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:49.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.157][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:49.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:49.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.164][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:49.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:49.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.171][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:49.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:49.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:49.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:49.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.361][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.377][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:49.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:49.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:49.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:49.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:49.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:49.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:49.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:49.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:49.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.411][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:49.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:49.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:49.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:49.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:49.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:49.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:49.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:49.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.438][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:02:49.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:02:49.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 06:02:49.457][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:02:49.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:49.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 06:02:49.511][self$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.INFO [2025-08-26 06:02:49.545][biodb::testThat]
biodb.INFO [2025-08-26 06:02:49.555][biodb::testThat] Running test function  test_comp.csv.file_wrong_field  (" We can redefine wrongly mapped field. ").
biodb.INFO [2025-08-26 06:02:49.557][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 06:02:49.558][biodb::testThat]
biodb.DEBUG[2025-08-26 06:02:51.777][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 06:02:54.298][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_custom.csv".
biodb.INFO [2025-08-26 06:02:54.338][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_custom.csv".
biodb.WARN [2025-08-26 06:02:54.353][private$autoSetFields] Column "ID" does not match any biodb field.
biodb.DEBUG[2025-08-26 06:02:54.356][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 06:02:54.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:54.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:54.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.370][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.372][self$setField] Set field molecular.mass to column(s) mass.
biodb.TRACE[2025-08-26 06:02:54.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:54.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:54.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.383][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.383][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.WARN [2025-08-26 06:02:54.393][private$autoSetFields] Column "molmass" does not match any biodb field.
biodb.WARN [2025-08-26 06:02:54.395][private$autoSetFields] Column "kegg" does not match any biodb field.
biodb.DEBUG[2025-08-26 06:02:54.399][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 06:02:54.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:54.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:54.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.411][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.411][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.411][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.414][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 06:02:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:54.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:54.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.422][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.422][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.422][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.422][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 06:02:54.424][self$setField] Set field description to column(s) description.
biodb.TRACE[2025-08-26 06:02:54.446][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 06:02:54.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 06:02:54.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.455][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.455][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.455][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.455][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 06:02:54.455][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:02:54.474][compdb$setField] Set field accession to column(s) ID.
biodb.TRACE[2025-08-26 06:02:54.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:54.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:54.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.483][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.483][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.483][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.483][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 06:02:54.483][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:02:54.483][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.486][compdb$setField] Set field kegg.compound.id to column(s) kegg.
biodb.TRACE[2025-08-26 06:02:54.488][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:54.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:54.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.495][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.ERROR[2025-08-26 06:02:54.497][compdb$setField] Field "molecular.mass" is already set to "mass".
biodb.INFO [2025-08-26 06:02:54.513][self$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.DEBUG[2025-08-26 06:02:54.518][super$initialize] Initialize connector comp.csv.file.1.
biodb.DEBUG[2025-08-26 06:02:54.523][biodb$getFactory()$createConn] Creating new connector comp.csv.file.1 for database class comp.csv.file , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_custom.csv".
biodb.INFO [2025-08-26 06:02:54.525][private$initDb] Loading file database "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/chebi_extract_custom.csv".
biodb.DEBUG[2025-08-26 06:02:54.533][compdb$setField] Set field accession to column(s) ID.
biodb.TRACE[2025-08-26 06:02:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:02:54.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:02:54.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.541][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.543][compdb$setField] Set field kegg.compound.id to column(s) kegg.
biodb.TRACE[2025-08-26 06:02:54.544][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:54.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:02:54.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.551][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.551][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.552][compdb$setField] Set field monoisotopic.mass to column(s) mass.
biodb.TRACE[2025-08-26 06:02:54.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:54.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 06:02:54.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.560][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.560][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.560][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.562][compdb$setField] Set field molecular.mass to column(s) molmass.
biodb.TRACE[2025-08-26 06:02:54.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:54.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-26 06:02:54.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.570][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.570][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.570][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.570][self$setPropertyValue] Setting property "parsing.expr" to "molmass".
biodb.DEBUG[2025-08-26 06:02:54.572][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2025-08-26 06:02:54.574][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:02:54.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:02:54.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.582][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.582][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.582][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.582][self$setPropertyValue] Setting property "parsing.expr" to "molmass".
biodb.DEBUG[2025-08-26 06:02:54.582][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.584][self$setField] Set field name to column(s) name.
biodb.TRACE[2025-08-26 06:02:54.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 06:02:54.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 06:02:54.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.593][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.593][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.593][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.593][self$setPropertyValue] Setting property "parsing.expr" to "molmass".
biodb.DEBUG[2025-08-26 06:02:54.593][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.593][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.595][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2025-08-26 06:02:54.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 06:02:54.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 06:02:54.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "molmass".
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.604][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 06:02:54.607][self$setField] Set field description to column(s) description.
biodb.TRACE[2025-08-26 06:02:54.609][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 06:02:54.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 06:02:54.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:02:54.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "ID".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "kegg".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "mass".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "molmass".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2025-08-26 06:02:54.616][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.INFO [2025-08-26 06:05:57.822][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-26 06:05:57.839][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.INFO [2025-08-26 06:05:57.842][self$deleteConn] Connector "comp.csv.file.1" deleted.
biodb.DEBUG[2025-08-26 06:05:57.844][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 06:05:57.845][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:05:57.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:05:57.848][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:57.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 06:05:57.974][biodb::testContext]
biodb.INFO [2025-08-26 06:05:57.979][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 06:05:57.981][biodb::testContext] Test context - CompSqlite generic tests
biodb.INFO [2025-08-26 06:05:57.983][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 06:05:57.985][biodb::testContext]
biodb.INFO [2025-08-26 06:05:57.988][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-26 06:05:57.991][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 06:05:58.040][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 06:05:58.042][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 06:05:58.044][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 06:05:58.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.050][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 06:05:58.052][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 06:05:58.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.059][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 06:05:58.061][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 06:05:58.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.067][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 06:05:58.069][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 06:05:58.071][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 06:05:58.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.078][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 06:05:58.080][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 06:05:58.081][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 06:05:58.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.090][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 06:05:58.092][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 06:05:58.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.115][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 06:05:58.129][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 06:05:58.131][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 06:05:58.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.137][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 06:05:58.139][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 06:05:58.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.164][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 06:05:58.166][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 06:05:58.169][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 06:05:58.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:05:58.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:05:58.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:05:58.180][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 06:05:58.803][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 06:06:30.021][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 06:06:30.050][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 06:06:30.052][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 06:06:30.054][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 06:06:30.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.060][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 06:06:30.062][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 06:06:30.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.068][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 06:06:30.070][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 06:06:30.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.076][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 06:06:30.077][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 06:06:30.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.083][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 06:06:30.085][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 06:06:30.087][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 06:06:30.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.092][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 06:06:30.094][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 06:06:30.269][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 06:06:30.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.290][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 06:06:30.291][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 06:06:30.293][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 06:06:30.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.298][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[2025-08-26 06:06:30.300][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 06:06:30.303][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.305][self$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[2025-08-26 06:06:30.306][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.308][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 06:06:30.310][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.312][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.313][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.315][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.317][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 06:06:30.318][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 06:06:30.320][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.322][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 06:06:30.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 06:06:30.325][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.327][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.329][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 06:06:30.329][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 06:06:30.329][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 06:06:30.329][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 06:06:30.329][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 06:06:30.330][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 06:06:30.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.335][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 06:06:30.337][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.340][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.342][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.344][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 06:06:30.345][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 06:06:30.347][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.349][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.351][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 06:06:30.354][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.355][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 06:06:30.357][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.359][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 06:06:30.360][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.362][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.363][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.365][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.367][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 06:06:30.368][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 06:06:30.370][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.372][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 06:06:30.373][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 06:06:30.375][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.377][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.378][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 06:06:30.378][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 06:06:30.378][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 06:06:30.378][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 06:06:30.378][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 06:06:30.380][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 06:06:30.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.385][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 06:06:30.386][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.389][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.391][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.392][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 06:06:30.394][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 06:06:30.395][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.397][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.399][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 06:06:30.402][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.403][self$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[2025-08-26 06:06:30.405][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.407][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 06:06:30.408][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.410][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.412][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.413][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.415][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 06:06:30.417][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 06:06:30.418][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.420][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 06:06:30.434][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 06:06:30.495][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.512][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.514][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.516][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 06:06:30.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.531][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 06:06:30.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.536][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.538][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.540][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 06:06:30.543][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 06:06:30.545][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.546][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.551][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 06:06:30.554][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.555][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 06:06:30.557][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.559][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 06:06:30.561][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.562][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.564][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.565][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.567][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 06:06:30.569][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 06:06:30.570][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.572][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 06:06:30.574][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 06:06:30.575][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.577][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 06:06:30.578][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.580][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 06:06:30.582][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.583][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.585][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 06:06:30.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 06:06:30.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 06:06:30.589][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 06:06:30.591][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.592][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 06:06:30.594][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 06:06:30.595][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 06:06:30.597][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 06:06:30.599][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 06:06:30.601][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:06:30.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:06:30.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:30.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:30.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:06:30.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:06:30.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:06:30.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:06:34.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:06:52.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:20.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.905][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[2025-08-26 06:07:42.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:42.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:42.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:42.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:42.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:42.914][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 06:07:42.922][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 06:07:42.925][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 06:07:42.927][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 06:07:42.930][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 06:07:42.932][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 06:07:42.934][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 06:07:42.937][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 06:07:42.939][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 06:07:42.941][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 06:07:42.944][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 06:07:42.946][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 06:07:42.949][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 06:07:42.951][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 06:07:42.953][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 06:07:42.956][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 06:07:42.958][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 06:07:42.960][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 06:07:42.963][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 06:07:42.965][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 06:07:42.967][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 06:07:42.969][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 06:07:42.972][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 06:07:42.975][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 06:07:42.977][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 06:07:42.979][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 06:07:42.981][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 06:07:42.984][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 06:07:42.986][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 06:07:43.003][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 06:07:43.009][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 06:07:43.013][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 06:07:43.016][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 06:07:43.019][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 06:07:43.022][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 06:07:43.025][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 06:07:43.028][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 06:07:43.031][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 06:07:43.033][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 06:07:43.036][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 06:07:43.040][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 06:07:43.043][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 06:07:43.047][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 06:07:43.049][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 06:07:43.052][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 06:07:43.054][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 06:07:43.057][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 06:07:43.060][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 06:07:43.064][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 06:07:43.067][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 06:07:43.070][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 06:07:43.072][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 06:07:43.075][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 06:07:43.077][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 06:07:43.079][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 06:07:43.081][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 06:07:43.083][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 06:07:43.086][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 06:07:43.088][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 06:07:43.090][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 06:07:43.093][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 06:07:43.095][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 06:07:43.097][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 06:07:43.099][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 06:07:43.102][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 06:07:43.104][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 06:07:43.106][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 06:07:43.108][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 06:07:43.110][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 06:07:43.112][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 06:07:43.115][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 06:07:43.117][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 06:07:43.120][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 06:07:43.122][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 06:07:43.124][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 06:07:43.126][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 06:07:43.129][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 06:07:43.131][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 06:07:43.133][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 06:07:43.135][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 06:07:43.139][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 06:07:43.142][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 06:07:43.144][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 06:07:43.147][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 06:07:43.172][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-26 06:07:43.215][super$initialize] Initialize connector comp.sqlite.
biodb.DEBUG[2025-08-26 06:07:43.217][biodb$getFactory()$createConn] Creating new connector comp.sqlite for database class comp.sqlite , with base URL "/home/biocbuild/R/R-4.5.0/site-library/biodb/extdata/generated/chebi_extract.sqlite".
biodb.INFO [2025-08-26 06:07:43.268][biodb::testThat]
biodb.INFO [2025-08-26 06:07:43.270][biodb::testThat] Running test function  test_cache_for_local_db  (" We can use the cache system for a local database. ").
biodb.INFO [2025-08-26 06:07:43.271][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 06:07:43.272][biodb::testThat]
biodb.DEBUG[2025-08-26 06:07:43.275][bdb$getConfig()$set] Set key use.cache.for.local.db to TRUE.
biodb.DEBUG[2025-08-26 06:07:43.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 06:07:43.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:43.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:43.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:43.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 06:07:43.311][private$loadEntries] Creating entries from ids [1]: "1018".
biodb.DEBUG[2025-08-26 06:07:43.353][conn$getEntryContent] Get Compound SQLite entry content(s) for 1 id(s)...
fscache.INFO [2025-08-26 06:07:43.366][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/comp.sqlite-5ee1aca4a1d08ef7dd412c0f5d5060d6.
fscache.DEBUG[2025-08-26 06:07:43.383][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/comp.sqlite-5ee1aca4a1d08ef7dd412c0f5d5060d6/1018.json.
biodb.DEBUG[2025-08-26 06:07:43.398][conn$getEntryContent] 1 Compound SQLite entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 06:07:43.402][self$createEntryFromContent] Creating Compound SQLite entries from 1 content(s).
biodb.DEBUG[2025-08-26 06:07:43.407][self$createEntryFromContent] Parsing 1 Compound SQLite entries.
biodb.DEBUG[2025-08-26 06:07:43.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 06:07:43.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 06:07:43.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 06:07:43.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 06:07:43.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 06:07:43.433][entry.fields$get] Asked field names are: aa.seq.
biodb.TRACE[2025-08-26 06:07:43.435][entry.fields$get] Realnames of fields are: aa.seq.
biodb.TRACE[2025-08-26 06:07:43.440][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.442][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.444][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.TRACE[2025-08-26 06:07:43.445][entry.fields$get] Asked field names are: aa.seq.length.
biodb.TRACE[2025-08-26 06:07:43.447][entry.fields$get] Realnames of fields are: aa.seq.length.
biodb.TRACE[2025-08-26 06:07:43.449][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.450][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.452][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.452][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.TRACE[2025-08-26 06:07:43.454][entry.fields$get] Asked field names are: aa.seq.location.
biodb.TRACE[2025-08-26 06:07:43.456][entry.fields$get] Realnames of fields are: aa.seq.location.
biodb.TRACE[2025-08-26 06:07:43.458][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.460][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.462][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.462][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.462][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.TRACE[2025-08-26 06:07:43.464][entry.fields$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 06:07:43.466][entry.fields$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 06:07:43.467][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.469][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.471][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.471][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.471][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.471][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.TRACE[2025-08-26 06:07:43.472][entry.fields$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 06:07:43.475][entry.fields$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 06:07:43.476][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.478][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.480][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.480][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.480][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.480][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.480][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.TRACE[2025-08-26 06:07:43.482][entry.fields$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 06:07:43.483][entry.fields$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 06:07:43.485][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.487][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.489][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.489][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.489][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.489][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.489][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.489][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.TRACE[2025-08-26 06:07:43.490][entry.fields$get] Asked field names are: catalytic.activity.
biodb.TRACE[2025-08-26 06:07:43.492][entry.fields$get] Realnames of fields are: catalytic.activity.
biodb.TRACE[2025-08-26 06:07:43.494][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.496][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.497][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.TRACE[2025-08-26 06:07:43.500][entry.fields$get] Asked field names are: charge.
biodb.TRACE[2025-08-26 06:07:43.501][entry.fields$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-26 06:07:43.503][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.505][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.507][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.TRACE[2025-08-26 06:07:43.509][entry.fields$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 06:07:43.511][entry.fields$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 06:07:43.513][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.514][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.516][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.TRACE[2025-08-26 06:07:43.518][entry.fields$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 06:07:43.520][entry.fields$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 06:07:43.522][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.523][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.525][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.TRACE[2025-08-26 06:07:43.527][entry.fields$get] Asked field names are: chrom.col.constructor.
biodb.TRACE[2025-08-26 06:07:43.529][entry.fields$get] Realnames of fields are: chrom.col.constructor.
biodb.TRACE[2025-08-26 06:07:43.530][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.532][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.533][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.TRACE[2025-08-26 06:07:43.535][entry.fields$get] Asked field names are: chrom.col.diameter.
biodb.TRACE[2025-08-26 06:07:43.537][entry.fields$get] Realnames of fields are: chrom.col.diameter.
biodb.TRACE[2025-08-26 06:07:43.538][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.540][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.542][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.TRACE[2025-08-26 06:07:43.543][entry.fields$get] Asked field names are: chrom.col.id.
biodb.TRACE[2025-08-26 06:07:43.545][entry.fields$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2025-08-26 06:07:43.547][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.548][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.550][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.TRACE[2025-08-26 06:07:43.551][entry.fields$get] Asked field names are: chrom.col.length.
biodb.TRACE[2025-08-26 06:07:43.553][entry.fields$get] Realnames of fields are: chrom.col.length.
biodb.TRACE[2025-08-26 06:07:43.555][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.556][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.558][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.TRACE[2025-08-26 06:07:43.560][entry.fields$get] Asked field names are: chrom.col.method.protocol.
biodb.TRACE[2025-08-26 06:07:43.561][entry.fields$get] Realnames of fields are: chrom.col.method.protocol.
biodb.TRACE[2025-08-26 06:07:43.563][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.565][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.566][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.TRACE[2025-08-26 06:07:43.568][entry.fields$get] Asked field names are: chrom.col.name.
biodb.TRACE[2025-08-26 06:07:43.570][entry.fields$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2025-08-26 06:07:43.572][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.573][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.575][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.TRACE[2025-08-26 06:07:43.577][entry.fields$get] Asked field names are: chrom.flow.gradient.
biodb.TRACE[2025-08-26 06:07:43.579][entry.fields$get] Realnames of fields are: chrom.flow.gradient.
biodb.TRACE[2025-08-26 06:07:43.580][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.582][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.584][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.TRACE[2025-08-26 06:07:43.585][entry.fields$get] Asked field names are: chrom.flow.rate.
biodb.TRACE[2025-08-26 06:07:43.588][entry.fields$get] Realnames of fields are: chrom.flow.rate.
biodb.TRACE[2025-08-26 06:07:43.590][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.592][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.594][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.TRACE[2025-08-26 06:07:43.596][entry.fields$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-26 06:07:43.599][entry.fields$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-26 06:07:43.601][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.603][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.605][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.TRACE[2025-08-26 06:07:43.607][entry.fields$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-26 06:07:43.609][entry.fields$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-26 06:07:43.611][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.613][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.615][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.TRACE[2025-08-26 06:07:43.618][entry.fields$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-26 06:07:43.620][entry.fields$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-26 06:07:43.622][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.623][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.625][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.TRACE[2025-08-26 06:07:43.627][entry.fields$get] Asked field names are: chrom.rt.unit.
biodb.TRACE[2025-08-26 06:07:43.629][entry.fields$get] Realnames of fields are: chrom.rt.unit.
biodb.TRACE[2025-08-26 06:07:43.631][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.632][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.634][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.TRACE[2025-08-26 06:07:43.636][entry.fields$get] Asked field names are: chrom.solvent.
biodb.TRACE[2025-08-26 06:07:43.638][entry.fields$get] Realnames of fields are: chrom.solvent.
biodb.TRACE[2025-08-26 06:07:43.640][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.642][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.643][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.TRACE[2025-08-26 06:07:43.646][entry.fields$get] Asked field names are: cofactor.
biodb.TRACE[2025-08-26 06:07:43.648][entry.fields$get] Realnames of fields are: cofactor.
biodb.TRACE[2025-08-26 06:07:43.649][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.651][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.652][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.TRACE[2025-08-26 06:07:43.654][entry.fields$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:07:43.656][entry.fields$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2025-08-26 06:07:43.658][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.660][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.661][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.TRACE[2025-08-26 06:07:43.663][entry.fields$get] Asked field names are: comp.iupac.name.allowed.
biodb.TRACE[2025-08-26 06:07:43.665][entry.fields$get] Realnames of fields are: comp.iupac.name.allowed.
biodb.TRACE[2025-08-26 06:07:43.667][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.668][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.670][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.TRACE[2025-08-26 06:07:43.672][entry.fields$get] Asked field names are: comp.iupac.name.cas.
biodb.TRACE[2025-08-26 06:07:43.674][entry.fields$get] Realnames of fields are: comp.iupac.name.cas.
biodb.TRACE[2025-08-26 06:07:43.676][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.677][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.679][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.TRACE[2025-08-26 06:07:43.681][entry.fields$get] Asked field names are: comp.iupac.name.pref.
biodb.TRACE[2025-08-26 06:07:43.683][entry.fields$get] Realnames of fields are: comp.iupac.name.pref.
biodb.TRACE[2025-08-26 06:07:43.685][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.686][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.688][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.TRACE[2025-08-26 06:07:43.690][entry.fields$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 06:07:43.692][entry.fields$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 06:07:43.694][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.695][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.697][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.TRACE[2025-08-26 06:07:43.699][entry.fields$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 06:07:43.701][entry.fields$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 06:07:43.703][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.704][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.706][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.TRACE[2025-08-26 06:07:43.709][entry.fields$get] Asked field names are: comp.sqlite.id.
biodb.TRACE[2025-08-26 06:07:43.710][entry.fields$get] Realnames of fields are: comp.sqlite.id.
biodb.TRACE[2025-08-26 06:07:43.712][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.714][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.715][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.TRACE[2025-08-26 06:07:43.717][entry.fields$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 06:07:43.719][entry.fields$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 06:07:43.721][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.722][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.724][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.TRACE[2025-08-26 06:07:43.726][entry.fields$get] Asked field names are: composition.
biodb.TRACE[2025-08-26 06:07:43.728][entry.fields$get] Realnames of fields are: composition.
biodb.TRACE[2025-08-26 06:07:43.729][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.731][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.732][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.TRACE[2025-08-26 06:07:43.735][entry.fields$get] Asked field names are: compound.id.
biodb.TRACE[2025-08-26 06:07:43.736][entry.fields$get] Realnames of fields are: compound.id.
biodb.TRACE[2025-08-26 06:07:43.738][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.739][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.741][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.TRACE[2025-08-26 06:07:43.743][entry.fields$get] Asked field names are: description.
biodb.TRACE[2025-08-26 06:07:43.745][entry.fields$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 06:07:43.747][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.748][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.750][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.TRACE[2025-08-26 06:07:43.752][entry.fields$get] Asked field names are: ec.
biodb.TRACE[2025-08-26 06:07:43.754][entry.fields$get] Realnames of fields are: ec.
biodb.TRACE[2025-08-26 06:07:43.755][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.757][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.759][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.TRACE[2025-08-26 06:07:43.762][entry.fields$get] Asked field names are: equation.
biodb.TRACE[2025-08-26 06:07:43.764][entry.fields$get] Realnames of fields are: equation.
biodb.TRACE[2025-08-26 06:07:43.765][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.767][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.769][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.TRACE[2025-08-26 06:07:43.771][entry.fields$get] Asked field names are: expasy.enzyme.id.
biodb.TRACE[2025-08-26 06:07:43.772][entry.fields$get] Realnames of fields are: expasy.enzyme.id.
biodb.TRACE[2025-08-26 06:07:43.774][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.775][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.777][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.TRACE[2025-08-26 06:07:43.779][entry.fields$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 06:07:43.781][entry.fields$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 06:07:43.783][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.784][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.DEBUG[2025-08-26 06:07:43.786][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.TRACE[2025-08-26 06:07:43.788][entry.fields$get] Asked field names are: gene.symbol.
biodb.TRACE[2025-08-26 06:07:43.790][entry.fields$get] Realnames of fields are: gene.symbol.
biodb.TRACE[2025-08-26 06:07:43.792][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.805][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:07:43.808][self$setPropertyValue] Setting property "parsing.expr" to "gene_symbol".
biodb.TRACE[2025-08-26 06:07:43.810][entry.fields$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 06:07:43.813][entry.fields$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 06:07:43.814][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.816][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "gene_symbol".
biodb.DEBUG[2025-08-26 06:07:43.818][self$setPropertyValue] Setting property "parsing.expr" to "hmdb_metabolites_id".
biodb.TRACE[2025-08-26 06:07:43.820][entry.fields$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 06:07:43.822][entry.fields$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 06:07:43.824][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.825][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "gene_symbol".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "hmdb_metabolites_id".
biodb.DEBUG[2025-08-26 06:07:43.827][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.TRACE[2025-08-26 06:07:43.830][entry.fields$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 06:07:43.831][entry.fields$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 06:07:43.833][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.835][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "gene_symbol".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "hmdb_metabolites_id".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 06:07:43.837][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.TRACE[2025-08-26 06:07:43.839][entry.fields$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:07:43.841][entry.fields$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 06:07:43.842][entry.fields$get] 1 fields were returned.
biodb.TRACE[2025-08-26 06:07:43.844][entry.fields$get] fields variable is a list.
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.length".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "aa.seq.location".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "average.mass".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "cas_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "catalytic_activity".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "charge".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chebi_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chemspider_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.constructor".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.diameter".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.length".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.method.protocol".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.col.name".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.gradient".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.flow.rate".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.max".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.min".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom.rt.unit".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "chrom_solvent".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "cofactor".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp_csv_file_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.allowed".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.cas".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.pref".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.syst".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp.iupac.name.trad".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp_sqlite_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "comp.super.class".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "composition".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "compound_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "ec".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "equation".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "expasy_enzyme_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "gene_symbol".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "hmdb_metabolites_id".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "inchi".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "inchikey".
biodb.DEBUG[2025-08-26 06:07:43.845][self$setPropertyValue] Setting property "parsing.expr" to "kegg_compound_id".
biodb.TRACE[2025-08-26 06:07:43.848][entry.fields$get] Asked field names are: kegg.genes.id.
biodb.TRACE[2025-08-26 06:07:43.849][entry.fields$get] Realnames of fields are: kegg.genes.id.
biodb.TRACE[2025-08-26 06:07:43.851][entry.fields$get] 1 fields were returned.

Example timings

biodb.Rcheck/biodb-Ex.timings

nameusersystemelapsed
BiodbConfig0.5200.1290.718
BiodbConn0.3040.0170.325
BiodbConnBase0.1290.0020.132
BiodbCsvEntry0.0030.0000.003
BiodbDbInfo0.1370.0000.137
BiodbDbsInfo0.1290.0010.130
BiodbEntry0.4260.0080.514
BiodbEntryField0.1320.0000.133
BiodbEntryFields0.1280.0010.130
BiodbFactory0.1910.0000.199
BiodbHtmlEntry0.0010.0000.000
BiodbJsonEntry000
BiodbListEntry0.0000.0000.001
BiodbMain0.1310.0040.136
BiodbSdfEntry000
BiodbTestMsgAck0.1510.0000.152
BiodbTxtEntry000
BiodbXmlEntry000
CompCsvFileConn0.2150.0060.224
CompCsvFileEntry0.1720.0020.174
CompSqliteConn0.1690.0030.174
CompSqliteEntry0.1570.0000.158
CsvFileConn0.2050.0020.207
ExtConnClass0.1360.0000.138
ExtCpp0.0410.0000.044
ExtDefinitions0.0390.0000.040
ExtDescriptionFile0.0050.0080.014
ExtEntryClass0.0130.0040.018
ExtFileGenerator0.0150.0000.016
ExtGenerator0.2600.0010.281
ExtGitignore0.0070.0000.008
ExtLicense0.0330.0030.037
ExtMakefile0.0190.0000.020
ExtPackage0.2630.0080.277
ExtPackageFile0.0080.0000.008
ExtRbuildignore0.0040.0040.008
ExtReadme0.0050.0040.008
ExtTests0.0780.0040.081
ExtTravisFile0.0100.0000.011
ExtVignette0.0090.0000.009
MassCsvFileConn0.3150.0050.323
MassCsvFileEntry0.2490.0020.251
MassSqliteConn0.1620.0040.168
MassSqliteEntry0.1650.0000.165
Progress0.0030.0040.007
Range0.0050.0000.005
SqliteConn0.1560.0020.159
TestRefEntries0.0140.0070.022
checkDeprecatedCacheFolders0.0020.0000.001
createBiodbTestInstance0.1370.0020.139
df2str0.0020.0000.002
error0.0020.0000.002
error00.0010.0000.001
genNewExtPkg0.2520.0120.266
getConnClassName000
getConnTypes000
getDefaultCacheDir000
getEntryClassName000
getEntryTypes0.0010.0000.000
getLicenses000
getLogger0.0040.0000.004
getPkgName000
getReposName000
getTestOutputDir000
listTestRefEntries0.1120.0000.112
logDebug000
logDebug0000
logInfo0.0020.0000.002
logInfo00.0020.0000.002
logTrace000
logTrace00.0000.0000.001
lst2str000
newInst0.1340.0060.140
runGenericTests0.1460.0000.146
testContext0.6730.0000.678
testThat0.3050.0010.307
upgradeExtPkg0.2970.0120.313
warn0.0020.0000.003
warn00.0020.0000.002