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This page was generated on 2025-08-21 11:42 -0400 (Thu, 21 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4604
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4545
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4579
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 206/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.14.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-18 13:40 -0400 (Mon, 18 Aug 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_21
git_last_commit: b8d718f
git_last_commit_date: 2025-04-15 12:39:10 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for biodbChebi on kunpeng2

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.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: biodbChebi
Version: 1.14.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.14.0.tar.gz
StartedAt: 2025-08-19 06:17:22 -0000 (Tue, 19 Aug 2025)
EndedAt: 2025-08-19 06:25:22 -0000 (Tue, 19 Aug 2025)
EllapsedTime: 480.0 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* 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-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
           user system elapsed
ChebiConn 1.273   0.08   5.761
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.14.0’
** using staged installation
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
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(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-08-19 06:18:35.750][biodb::testContext]
biodb.INFO [2025-08-19 06:18:35.758][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:18:35.759][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-19 06:18:35.765][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:18:35.767][biodb::testContext]
biodb.INFO [2025-08-19 06:18:35.784][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:18:35.791][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-19 06:18:35.813][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:18:35.815][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-19 06:18:35.821][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-19 06:18:35.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:35.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:35.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:35.832][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-19 06:18:35.900][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-19 06:18:35.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:35.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:35.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:35.911][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-19 06:18:35.917][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-19 06:18:35.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:35.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:35.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:35.927][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-19 06:18:35.933][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-19 06:18:35.935][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-19 06:18:35.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:35.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:35.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:35.950][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-19 06:18:35.951][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-19 06:18:35.957][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-19 06:18:35.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:35.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:35.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:35.968][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-19 06:18:35.974][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-19 06:18:35.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:35.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:35.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:35.988][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-19 06:18:35.990][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-19 06:18:35.996][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-19 06:18:35.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.007][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-19 06:18:36.013][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-19 06:18:36.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.024][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-19 06:18:36.030][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-19 06:18:36.036][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-19 06:18:36.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.047][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:18:36.053][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-19 06:18:36.055][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-19 06:18:36.061][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-19 06:18:36.063][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-19 06:18:36.069][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-19 06:18:36.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.079][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-19 06:18:36.085][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-19 06:18:36.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.095][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-19 06:18:36.101][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-19 06:18:36.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.112][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-19 06:18:36.118][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-19 06:18:36.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.128][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-19 06:18:36.134][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-19 06:18:36.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.149][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-19 06:18:36.150][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-19 06:18:36.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.165][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:18:36.167][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-19 06:18:36.186][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-19 06:18:36.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.197][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-19 06:18:36.199][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-19 06:18:36.205][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-19 06:18:36.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.223][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-19 06:18:36.296][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.322][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-19 06:18:36.324][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.326][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:18:36.327][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.341][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.343][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.344][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.346][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:18:36.347][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:18:36.349][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.350][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-19 06:18:36.351][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:18:36.353][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.354][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.356][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:18:36.356][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:18:36.356][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:18:36.356][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:18:36.356][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:18:36.357][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:18:36.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.360][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.361][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:18:36.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.364][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.365][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.367][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.368][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:18:36.369][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:18:36.371][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.372][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.374][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-19 06:18:36.377][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.378][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:18:36.379][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.381][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:18:36.382][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.384][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.385][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.387][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.388][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:18:36.390][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:18:36.391][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.393][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-19 06:18:36.394][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:18:36.395][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.397][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.398][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:18:36.398][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:18:36.398][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:18:36.398][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:18:36.398][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:18:36.400][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:18:36.401][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.402][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.404][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:18:36.405][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.408][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.409][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.410][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:18:36.411][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:18:36.413][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.414][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.416][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-19 06:18:36.418][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.420][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-19 06:18:36.421][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.423][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:18:36.424][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.425][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.427][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.428][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.429][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:18:36.431][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:18:36.432][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.434][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-19 06:18:36.435][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:18:36.436][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.438][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.439][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.440][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:18:36.442][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.443][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.444][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:18:36.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.448][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.450][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:18:36.452][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:18:36.453][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.455][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.456][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-19 06:18:36.459][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.460][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:18:36.462][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.463][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:18:36.465][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.466][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.467][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.470][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:18:36.472][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:18:36.473][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.475][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-19 06:18:36.476][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:18:36.478][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.479][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:36.480][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:18:36.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.486][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:18:36.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:36.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:36.490][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:18:36.491][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:18:36.494][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:18:36.495][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:36.497][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:18:36.502][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:18:36.504][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.517][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[2025-08-19 06:18:36.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.536][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[2025-08-19 06:18:36.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.574][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[2025-08-19 06:18:36.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.592][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.DEBUG[2025-08-19 06:18:36.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.604][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[2025-08-19 06:18:36.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.610][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[2025-08-19 06:18:36.611][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-19 06:18:36.618][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-19 06:18:36.620][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-19 06:18:36.622][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-19 06:18:36.624][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:18:36.626][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-19 06:18:36.628][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-19 06:18:36.630][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-19 06:18:36.632][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-19 06:18:36.634][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-19 06:18:36.636][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:18:36.638][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-19 06:18:36.640][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-19 06:18:36.642][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-19 06:18:36.644][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-19 06:18:36.646][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-19 06:18:36.648][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-19 06:18:36.650][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-19 06:18:36.652][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:18:36.654][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-19 06:18:36.656][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-19 06:18:36.658][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-19 06:18:36.660][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-19 06:18:36.662][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-19 06:18:36.665][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-19 06:18:36.666][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-19 06:18:36.668][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-19 06:18:36.670][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-19 06:18:36.673][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-19 06:18:36.675][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-19 06:18:36.677][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-19 06:18:36.679][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-19 06:18:36.681][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-19 06:18:36.683][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-19 06:18:36.685][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-19 06:18:36.687][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-19 06:18:36.689][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-19 06:18:36.691][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-19 06:18:36.694][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-19 06:18:36.696][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-19 06:18:36.698][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-19 06:18:36.700][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-19 06:18:36.702][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-19 06:18:36.704][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-19 06:18:36.706][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-19 06:18:36.708][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-19 06:18:36.710][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-19 06:18:36.712][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-19 06:18:36.714][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-19 06:18:36.725][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-19 06:18:36.727][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-19 06:18:36.729][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-19 06:18:36.731][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-19 06:18:36.733][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-19 06:18:36.735][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-19 06:18:36.737][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-19 06:18:36.739][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-19 06:18:36.741][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-19 06:18:36.743][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-19 06:18:36.746][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-19 06:18:36.748][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-19 06:18:36.750][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-19 06:18:36.752][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-19 06:18:36.754][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-19 06:18:36.756][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-19 06:18:36.758][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-19 06:18:36.760][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:18:36.762][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:18:36.765][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-19 06:18:36.767][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-19 06:18:36.769][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-19 06:18:36.771][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-19 06:18:36.773][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-19 06:18:36.775][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-19 06:18:36.778][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-19 06:18:36.780][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-19 06:18:36.782][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-19 06:18:36.784][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-19 06:18:36.786][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-19 06:18:36.788][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-19 06:18:36.790][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-19 06:18:36.792][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-19 06:18:36.794][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-19 06:18:36.803][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-19 06:18:36.805][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:18:36.810][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:18:36.811][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.814][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.838][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.DEBUG[2025-08-19 06:18:36.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.846][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[2025-08-19 06:18:36.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:36.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:36.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:36.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:36.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:36.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:36.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:36.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:37.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:37.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:37.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:37.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:37.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:37.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:37.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:37.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:37.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:37.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.043][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[2025-08-19 06:18:37.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:37.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:37.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:37.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:37.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.065][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[2025-08-19 06:18:37.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:37.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:37.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:37.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:37.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:37.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:18:37.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:37.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:37.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:37.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.106][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[2025-08-19 06:18:37.112][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-19 06:18:37.140][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-19 06:18:37.147][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:37.153][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-19 06:18:37.154][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:37.156][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:18:37.162][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:37.163][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:18:37.169][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:37.171][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-19 06:18:37.177][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-19 06:18:37.178][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:18:37.180][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:37.186][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-19 06:18:37.187][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-19 06:18:37.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-19 06:18:37.195][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-19 06:18:37.201][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:18:37.201][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:18:37.201][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:18:37.202][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-19 06:18:37.204][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:37.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:37.211][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:18:37.217][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:18:37.218][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:18:37.220][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:18:37.225][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:18:37.225][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-19 06:18:37.227][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:18:37.232][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:18:37.234][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-19 06:18:37.236][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-19 06:18:37.236][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-19 06:18:37.258][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:18:37.264][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:18:37.267][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-19 06:18:37.274][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:18:37.280][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:18:37.283][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:18:37.354][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-19 06:18:37.360][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-19 06:18:37.371][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-19 06:18:37.385][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-19 06:18:37.395][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:18:37.401][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:18:37.403][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-19 06:18:37.409][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-19 06:18:37.458][biodb::testThat]
biodb.INFO [2025-08-19 06:18:37.459][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-19 06:18:37.465][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:37.466][biodb::testThat]
biodb.TRACE[2025-08-19 06:18:37.481][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-19 06:18:37.484][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:18:37.497][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:18:37.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:37.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:37.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:37.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:37.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:37.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:37.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:18:37.598][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:37.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:37.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:37.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:37.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.668][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:37.670][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:37.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.765][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:37.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:37.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.776][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:37.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:37.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.791][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:37.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:37.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.806][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:37.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:37.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:37.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:37.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.832][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:37.838][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:37.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.862][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:37.863][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:37.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.877][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:37.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:37.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.887][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:37.893][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:37.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:37.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.950][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:37.956][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:37.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:37.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:37.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.982][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:37.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:37.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:37.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:37.998][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:38.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:38.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.014][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:38.016][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:38.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.029][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:38.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:38.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:38.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:38.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:38.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:38.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:38.456][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-19 06:18:38.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:38.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:38.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:38.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:38.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:38.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:38.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:38.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:38.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:38.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:38.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:38.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.645][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-19 06:18:38.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-19 06:18:38.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.660][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-19 06:18:38.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-19 06:18:38.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.676][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-19 06:18:38.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-19 06:18:38.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.693][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-19 06:18:38.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-19 06:18:38.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:38.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:38.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:38.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:38.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:39.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:39.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:39.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.030][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:39.031][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:39.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:39.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.119][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:39.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:39.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:39.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:39.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:39.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:39.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:39.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.229][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:39.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:39.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:39.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:39.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:39.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:39.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:39.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:39.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:39.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:39.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.312][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:39.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:39.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.325][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.327][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:39.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:39.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.406][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.407][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:39.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.500][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.544][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:39.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:39.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.558][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:39.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.583][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:39.589][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:39.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:39.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.636][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.647][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.672][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.678][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.686][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:39.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.720][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.744][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.761][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.771][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:39.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:39.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:39.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.825][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:39.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:39.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:39.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:39.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.850][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:39.856][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:39.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:39.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:39.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.939][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.961][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.050][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.056][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:40.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:40.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:40.130][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:40.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.148][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:40.154][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:40.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:40.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:40.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.225][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:40.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:40.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.250][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:40.252][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:40.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:40.281][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:40.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.299][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-19 06:18:40.305][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:40.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.324][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:40.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:40.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:40.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:40.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.362][ef$get] fields variable is a list.
biodb.INFO [2025-08-19 06:18:40.386][biodb::testThat]
biodb.INFO [2025-08-19 06:18:40.388][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-19 06:18:40.393][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:40.395][biodb::testThat]
biodb.DEBUG[2025-08-19 06:18:40.441][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-19 06:18:40.459][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:18:40.474][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-08-19 06:18:40.476][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:40.482][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-08-19 06:18:40.484][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:18:40.561][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:18:40.563][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:18:40.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:40.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:40.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:40.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:40.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:40.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:40.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:18:40.603][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:40.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:40.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:40.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.699][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:40.705][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:40.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.714][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:40.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.724][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:40.730][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:40.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:40.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:40.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.753][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.755][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:40.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:40.779][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:40.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:40.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:40.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:40.809][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:40.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.818][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:40.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.828][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:40.834][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:40.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.842][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:40.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:40.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.857][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:40.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:40.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:40.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:40.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.881][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:40.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:40.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:40.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:40.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:40.908][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:40.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.920][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:40.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.931][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:40.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:40.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:40.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:40.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:40.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:40.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:40.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:40.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:40.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:40.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:41.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:41.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:41.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:41.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:41.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:41.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:41.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:41.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:41.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:41.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:41.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:41.082][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-19 06:18:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-19 06:18:41.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-19 06:18:41.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-19 06:18:41.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-19 06:18:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-19 06:18:41.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-19 06:18:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-19 06:18:41.146][biodb::testThat]
biodb.INFO [2025-08-19 06:18:41.147][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-19 06:18:41.149][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:41.150][biodb::testThat]
biodb.TRACE[2025-08-19 06:18:41.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.165][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.168][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:41.174][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-19 06:18:41.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:41.302][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-08-19 06:18:41.317][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-19 06:18:41.398][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:41.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-19 06:18:41.454][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:41.456][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-19 06:18:41.532][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:41.541][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:41.544][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:18:41.550][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:41.561][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-19 06:18:41.564][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-19 06:18:41.602][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:41.604][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:41.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.616][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:41.618][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:41.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.625][ef$get] fields variable is a list.
biodb.INFO [2025-08-19 06:18:41.635][biodb::testThat]
biodb.INFO [2025-08-19 06:18:41.641][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-19 06:18:41.642][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:41.644][biodb::testThat]
biodb.TRACE[2025-08-19 06:18:41.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:41.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:41.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:41.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:41.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:41.928][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:41.937][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:41.939][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:18:41.945][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:41.947][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-08-19 06:18:41.995][biodb::testThat]
biodb.INFO [2025-08-19 06:18:42.001][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-19 06:18:42.002][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:42.004][biodb::testThat]
biodb.TRACE[2025-08-19 06:18:42.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:42.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:42.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:42.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:42.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.185][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.201][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-19 06:18:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-19 06:18:42.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-19 06:18:42.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-19 06:18:42.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:42.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:42.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:42.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:42.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.353][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.363][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-19 06:18:42.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.377][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-19 06:18:42.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-19 06:18:42.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:42.387][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-19 06:18:42.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-19 06:18:42.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:42.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-19 06:18:42.418][biodb::testThat]
biodb.INFO [2025-08-19 06:18:42.419][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-19 06:18:42.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:42.426][biodb::testThat]
biodb.INFO [2025-08-19 06:18:42.450][biodb::testThat]
biodb.INFO [2025-08-19 06:18:42.452][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-19 06:18:42.457][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:42.459][biodb::testThat]
biodb.INFO [2025-08-19 06:18:42.479][biodb::testThat]
biodb.INFO [2025-08-19 06:18:42.481][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-19 06:18:42.482][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:42.483][biodb::testThat]
biodb.DEBUG[2025-08-19 06:18:42.489][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-08-19 06:18:44.637][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-08-19 06:18:48.091][biodb::testThat]
biodb.INFO [2025-08-19 06:18:48.101][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-19 06:18:48.102][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:48.104][biodb::testThat]
biodb.DEBUG[2025-08-19 06:18:48.817][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-08-19 06:18:50.066][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:50.067][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:50.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.076][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:50.081][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:50.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.088][ef$get] fields variable is a list.
biodb.INFO [2025-08-19 06:18:50.091][biodb::testThat]
biodb.INFO [2025-08-19 06:18:50.096][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-19 06:18:50.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:18:50.099][biodb::testThat]
biodb.TRACE[2025-08-19 06:18:50.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:50.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:50.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:50.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:50.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:50.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:50.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:50.383][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:50.396][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:50.399][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:18:50.405][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:50.407][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-19 06:18:50.619][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:50.624][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:50.626][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:18:50.628][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:50.630][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-08-19 06:18:50.662][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-19 06:18:50.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-19 06:18:50.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:50.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:50.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:50.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:50.776][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:50.789][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:50.792][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-19 06:18:50.798][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:50.817][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-19 06:18:50.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:50.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:50.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:50.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:50.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:50.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:50.856][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[2025-08-19 06:18:50.858][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-19 06:18:50.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:18:50.950][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-08-19 06:18:50.953][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-19 06:18:50.955][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-19 06:18:50.957][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:18:50.959][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:18:50.961][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-19 06:18:50.962][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-19 06:18:50.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:50.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:50.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:50.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:50.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:50.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:50.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:50.984][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-08-19 06:18:50.988][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-19 06:18:50.989][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-19 06:18:50.991][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-08-19 06:18:51.705][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-08-19 06:18:52.395][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-19 06:18:52.403][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-08-19 06:18:52.435][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-08-19 06:18:52.439][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-08-19 06:18:52.442][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-19 06:18:52.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:18:52.445][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:18:52.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:52.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:52.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:52.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:52.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:52.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:52.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:18:52.470][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.473][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.485][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:52.487][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:52.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.492][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:52.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:52.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.499][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:52.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:52.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:52.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:52.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:52.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:52.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:52.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:52.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.525][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:52.526][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:52.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:52.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:52.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.540][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:52.542][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:52.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.546][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:52.548][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.553][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:52.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:52.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:52.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:52.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:52.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.571][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:52.573][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:52.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:52.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:52.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.583][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:52.585][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:52.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.590][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:52.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:52.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.596][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:52.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:52.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.602][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:52.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:52.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:52.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:52.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:52.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:52.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:52.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:52.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:52.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:52.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:52.705][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-19 06:18:52.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:52.739][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:52.743][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:52.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-19 06:18:52.746][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:52.749][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-19 06:18:52.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:52.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:52.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:52.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:52.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:52.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:52.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:18:52.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:52.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:52.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:52.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:52.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:52.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:52.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:52.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:52.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:52.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:52.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:52.817][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-19 06:18:52.818][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:18:52.820][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-08-19 06:18:52.822][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-19 06:18:52.823][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-19 06:18:52.825][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:18:52.826][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:18:52.828][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-19 06:18:52.829][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-19 06:18:52.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:52.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:52.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:52.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:52.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:52.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:52.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:52.864][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-08-19 06:18:52.887][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-19 06:18:52.889][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-19 06:18:52.920][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-08-19 06:18:53.602][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-08-19 06:18:54.266][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-19 06:18:54.282][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-08-19 06:18:54.299][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-08-19 06:18:54.316][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-08-19 06:18:54.326][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-19 06:18:54.333][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:18:54.335][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:18:54.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:54.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:54.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:54.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:54.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:54.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:54.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:18:54.407][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.417][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.454][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:54.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:54.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.478][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:18:54.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:18:54.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.498][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:54.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:54.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:18:54.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:18:54.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.525][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:54.526][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:54.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:18:54.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:18:54.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.542][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:54.543][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:54.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:18:54.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:18:54.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:54.559][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:18:54.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.565][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:54.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.572][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:18:54.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.578][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:54.580][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:54.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:54.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:18:54.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.592][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:54.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:54.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:18:54.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:18:54.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.605][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:54.607][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:54.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.611][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:18:54.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:18:54.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.626][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:54.627][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:54.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:18:54.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:18:54.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:54.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:54.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:54.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:54.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:18:54.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:18:54.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:18:54.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:18:54.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:54.708][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-19 06:18:54.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:54.772][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:18:54.776][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:18:54.778][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:18:54.780][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:18:54.782][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-19 06:18:54.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:54.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:54.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:54.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:54.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:54.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:54.799][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[2025-08-19 06:18:54.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:18:54.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:18:54.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:18:54.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:18:54.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:54.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:54.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:54.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:54.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:54.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:54.830][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.DEBUG[2025-08-19 06:18:54.831][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-19 06:18:54.833][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:18:54.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-08-19 06:18:54.837][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-19 06:18:54.838][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-19 06:18:54.839][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:18:54.841][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:18:54.842][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-19 06:18:54.844][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-19 06:18:54.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:18:54.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:18:54.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:18:54.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:18:54.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:18:54.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:18:54.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:18:54.862][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-08-19 06:18:54.866][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-19 06:18:54.868][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-19 06:18:54.869][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-08-19 06:19:16.850][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-08-19 06:19:22.835][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-19 06:19:22.877][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-08-19 06:19:22.896][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-08-19 06:19:22.901][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-08-19 06:19:22.903][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-19 06:19:22.906][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:19:22.908][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:19:22.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:19:22.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:19:22.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:19:22.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:19:22.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:19:22.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:19:22.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:19:22.999][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:23.002][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:23.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:23.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:23.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.027][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:19:23.029][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:19:23.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.035][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:19:23.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:19:23.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.043][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:19:23.045][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:19:23.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:19:23.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:19:23.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:19:23.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:19:23.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.067][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:19:23.070][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:23.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:19:23.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:19:23.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.149][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:19:23.151][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:19:23.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:19:23.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:19:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.188][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:19:23.198][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:19:23.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.208][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:19:23.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:19:23.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:19:23.230][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:19:23.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:19:23.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:19:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:19:23.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:19:23.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:23.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:23.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:19:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:19:25.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:25.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:25.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:19:25.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:19:25.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:26.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:19:26.002][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-19 06:19:26.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:26.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:26.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:26.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:19:26.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:19:26.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:19:26.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:19:26.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:19:26.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:19:26.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:19:26.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:19:26.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:19:26.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:19:26.122][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[2025-08-19 06:19:26.124][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-19 06:19:26.126][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:19:26.130][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-08-19 06:19:26.177][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-19 06:19:26.180][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-19 06:19:26.182][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:19:26.191][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:19:26.193][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-19 06:19:26.195][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-19 06:19:26.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:19:26.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:19:26.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:19:26.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:19:26.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:19:26.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:19:26.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:19:26.225][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-08-19 06:19:26.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-19 06:19:26.244][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-19 06:19:26.247][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-08-19 06:21:06.925][doesRCurlRequestUrlExist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285 does not exist.
biodb.TRACE[2025-08-19 06:21:06.966][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2025-08-19 06:21:06.969][getUrlRequestResult] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2025-08-19 06:21:06.972][getBaseUrlRequestResult] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-08-19 06:21:08.127][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-19 06:21:08.141][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-08-19 06:21:08.200][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-08-19 06:21:08.236][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-08-19 06:21:08.243][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-19 06:21:08.250][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:08.257][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:08.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:08.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:08.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:08.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:08.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:08.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:08.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:08.371][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.378][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.410][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:08.417][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:08.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.428][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:08.434][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:08.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.450][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:08.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:08.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.467][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:08.474][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:08.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.488][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:08.491][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:08.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.506][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:08.508][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:08.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:08.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.539][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:08.546][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:08.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:08.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:08.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.576][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:08.579][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:08.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.593][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:08.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:08.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:08.611][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:08.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:08.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:08.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:08.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:08.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:08.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:08.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:08.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:08.876][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-19 06:21:08.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:08.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:08.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:08.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:08.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:08.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:08.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:09.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:09.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:09.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:09.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:09.018][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-19 06:21:09.020][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:09.027][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-08-19 06:21:09.033][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:09.053][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-08-19 06:21:09.055][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:09.062][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:09.064][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:09.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:09.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:09.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:09.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:09.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:09.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:09.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:09.118][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.144][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:09.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:09.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.159][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:09.165][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:09.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:09.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:09.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.190][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:09.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:09.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.207][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:09.213][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:09.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.222][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:09.228][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:09.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:09.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.247][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:09.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:09.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:09.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:09.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.279][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:09.281][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:09.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:09.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.293][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:09.294][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:09.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:09.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:09.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:09.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:09.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:09.398][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-19 06:21:09.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:09.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:09.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:09.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:09.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:09.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:09.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:09.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:09.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:09.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:09.520][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[2025-08-19 06:21:09.522][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-19 06:21:09.523][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:10.860][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-08-19 06:21:10.891][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:10.909][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-08-19 06:21:10.912][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:10.914][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:10.916][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:10.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:10.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:10.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:10.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:10.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:10.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:10.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:11.035][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.042][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.056][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:11.058][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:11.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.065][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:11.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:11.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.073][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:11.075][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:11.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:11.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:11.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:11.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:11.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:11.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:11.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.103][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.105][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.116][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.118][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.130][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:11.132][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.137][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:11.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.144][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.146][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.157][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:11.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:11.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:11.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:11.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.171][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:11.172][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:11.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:11.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:11.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:11.186][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:11.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.191][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:11.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:11.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:11.289][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-19 06:21:11.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:11.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:11.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:11.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:11.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:11.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:11.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:11.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:11.329][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-19 06:21:11.331][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:11.333][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-08-19 06:21:11.335][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:11.338][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-08-19 06:21:11.340][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:11.342][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:11.343][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:11.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:11.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:11.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:11.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:11.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:11.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:11.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:11.363][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.375][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:11.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:11.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:11.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:11.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:11.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:11.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:11.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.398][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:11.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:11.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:11.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:11.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.411][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.421][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.427][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.433][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:11.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:11.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.458][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:11.460][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:11.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:11.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:11.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.470][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:11.471][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:11.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.476][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:11.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:11.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:11.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:11.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.487][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:11.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:11.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:11.559][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-19 06:21:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:11.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:11.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:11.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:11.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:11.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:11.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:11.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:11.593][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-19 06:21:11.594][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:11.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-08-19 06:21:11.598][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:11.608][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-08-19 06:21:11.610][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:11.620][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:11.622][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:11.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:11.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:11.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:11.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:11.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:11.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:11.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:11.664][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.670][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.693][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:11.695][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:11.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.709][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:11.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:11.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.724][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:11.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:11.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.749][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.751][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:11.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:11.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:11.768][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:11.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:11.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:11.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.792][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.798][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:11.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.818][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.819][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:11.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.833][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:11.835][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:11.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:11.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.862][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.864][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:11.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.892][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:11.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:11.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.919][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:11.925][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:11.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:11.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:11.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:11.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:11.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:11.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:11.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:11.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:11.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:11.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:11.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:11.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:12.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:12.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:12.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:12.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:12.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:12.028][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-19 06:21:12.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:12.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:12.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:12.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:12.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:12.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:12.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:12.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:12.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:12.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:12.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:12.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:12.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:12.086][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[2025-08-19 06:21:12.088][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-19 06:21:12.090][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:12.092][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-08-19 06:21:12.141][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:12.153][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-08-19 06:21:12.155][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:12.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:12.167][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:12.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:12.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:12.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:12.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:12.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:12.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:12.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:12.258][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:12.281][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:12.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:12.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:12.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.357][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:12.359][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:12.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.428][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:12.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:12.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.441][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:12.443][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:12.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:12.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:12.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:12.563][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:12.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:12.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:12.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:17.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:17.866][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:17.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:17.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.904][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:17.906][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:17.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:17.913][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:17.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:17.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:17.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.925][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:17.927][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:17.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:17.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:17.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.945][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:17.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:17.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:17.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:17.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.968][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:17.969][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:17.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:17.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:17.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.984][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:17.986][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:17.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:17.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:17.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:17.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:17.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:18.123][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-19 06:21:18.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:18.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:18.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:18.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:18.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:18.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:18.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:18.199][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[2025-08-19 06:21:18.201][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-19 06:21:18.203][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:18.254][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-08-19 06:21:18.321][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:18.332][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-08-19 06:21:18.334][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:18.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:18.338][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:18.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:18.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:18.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:18.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:18.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:18.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:18.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:18.374][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.379][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.399][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:18.401][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:18.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.406][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:18.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:18.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.413][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:18.415][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:18.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:18.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:18.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:18.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:18.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:18.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:18.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.443][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.455][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:18.456][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:18.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.461][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:18.463][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.467][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:18.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.475][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.486][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:18.488][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:18.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:18.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:18.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.499][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:18.500][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:18.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:18.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:18.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.512][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:18.514][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:18.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:18.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:18.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:18.641][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-19 06:21:18.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:18.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:18.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:18.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:18.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:18.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:18.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:18.711][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[2025-08-19 06:21:18.713][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-19 06:21:18.714][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:18.717][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-08-19 06:21:18.719][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:18.737][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-08-19 06:21:18.739][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:18.741][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:18.743][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:18.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:18.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:18.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:18.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:18.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:18.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:18.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:18.783][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.786][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.798][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:18.800][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:18.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:18.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:18.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.812][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:18.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:18.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:18.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:18.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.825][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:18.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:18.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:18.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:18.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.837][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.839][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:18.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.849][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:18.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:18.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.856][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:18.858][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.863][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:18.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:18.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.881][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:18.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:18.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:18.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:18.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.893][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:18.895][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:18.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.900][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:18.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:18.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.906][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:18.907][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:18.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:18.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:18.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:18.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:18.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:18.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:18.976][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-19 06:21:18.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:18.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:18.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:19.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:19.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:19.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:19.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:19.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:19.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:19.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:19.017][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-19 06:21:19.019][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:19.021][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-08-19 06:21:19.023][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:19.027][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-08-19 06:21:19.029][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:19.031][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:19.033][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:19.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:19.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:19.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:19.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:19.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:19.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:19.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:19.051][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.063][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:19.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:19.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.068][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:19.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:19.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.074][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:19.075][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:19.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.080][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:19.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:19.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.085][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:19.087][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:19.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:19.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:19.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.099][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.111][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:19.121][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:19.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.130][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:19.132][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.136][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:19.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.142][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.160][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:19.161][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:19.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:19.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:19.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.171][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:19.172][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:19.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:19.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:19.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.182][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:19.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:19.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.188][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:19.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:19.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:19.250][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-19 06:21:19.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:19.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:19.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:19.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:19.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:19.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:19.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:19.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:19.335][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-19 06:21:19.336][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:19.339][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-08-19 06:21:19.343][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:19.362][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-08-19 06:21:19.364][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:19.366][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:19.367][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:19.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:19.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:19.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:19.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:19.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:19.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:19.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:19.390][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.392][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.403][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:19.404][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:19.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.409][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:19.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:19.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.415][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:19.416][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:19.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:19.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:19.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:19.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:19.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.432][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.434][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.438][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:19.440][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:19.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.445][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:19.446][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:19.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.456][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.458][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.468][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:19.470][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:19.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.480][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:19.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:19.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:19.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:19.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.492][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:19.493][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:19.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:19.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:19.554][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-19 06:21:19.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:19.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:19.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:19.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:19.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:19.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:19.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:19.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:19.598][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-19 06:21:19.599][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:19.614][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-08-19 06:21:19.623][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:19.633][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-08-19 06:21:19.635][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:19.637][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:19.638][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:19.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:19.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:19.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:19.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:19.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:19.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:19.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:19.668][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.670][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:19.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:19.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.681][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:19.682][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:19.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.687][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:19.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:19.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.692][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:19.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:19.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:19.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:19.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:19.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:19.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.712][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.713][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:19.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.718][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:19.720][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:19.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.728][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:19.729][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.734][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:19.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:19.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.741][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.744][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:19.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:19.758][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:19.760][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:19.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:19.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:35.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:39.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.865][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:39.867][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:39.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.895][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:39.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:39.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.901][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:39.903][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:39.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:39.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:39.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:39.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:39.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:39.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:39.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:39.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:39.973][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-19 06:21:39.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:39.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:39.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:39.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:39.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:39.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:39.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:39.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:40.016][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-19 06:21:40.017][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:40.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-08-19 06:21:40.046][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:40.050][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-08-19 06:21:40.052][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:40.055][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:40.057][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:40.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:40.093][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.095][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.109][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:40.111][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:40.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:40.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.145][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:40.147][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:40.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:40.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:40.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.159][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:40.161][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:40.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:40.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:40.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.174][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:40.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:40.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.193][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:40.194][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.199][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.219][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:40.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:40.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:40.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:40.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.232][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:40.233][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:40.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:40.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:40.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:40.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:40.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.250][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:40.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:40.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:40.317][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-19 06:21:40.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:40.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:40.351][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-19 06:21:40.352][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:40.355][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-08-19 06:21:40.357][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:40.360][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-08-19 06:21:40.362][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:40.364][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:40.365][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:40.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:40.385][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.387][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.397][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:40.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:40.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:40.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.410][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:40.411][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:40.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:40.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:40.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.431][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:40.433][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:40.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.436][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:40.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:40.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.446][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.457][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:40.458][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:40.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.463][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:40.471][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:40.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.487][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.488][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.500][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:40.501][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:40.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:40.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:40.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.514][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:40.515][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:40.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:40.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.527][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:40.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:40.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:40.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:40.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:40.606][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-19 06:21:40.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:40.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.643][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[2025-08-19 06:21:40.645][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-19 06:21:40.647][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:40.650][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-08-19 06:21:40.652][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:40.655][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-08-19 06:21:40.657][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:40.659][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:40.661][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:40.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:40.683][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.685][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.697][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:40.699][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:40.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.704][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:40.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:40.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.711][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:40.713][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:40.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.718][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:40.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.725][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:40.727][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:40.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:40.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:40.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.759][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.761][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.774][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:40.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:40.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.781][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:40.782][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.788][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:40.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.797][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:40.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.808][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:40.809][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:40.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:40.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:40.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.821][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:40.822][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:40.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.827][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:40.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:40.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:40.835][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:40.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.839][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:40.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:40.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:40.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:40.908][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-19 06:21:40.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:40.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:40.945][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-19 06:21:40.947][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:40.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-08-19 06:21:40.959][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:40.963][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-08-19 06:21:40.964][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:40.966][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:40.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:40.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:40.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:40.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:40.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:40.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:40.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:40.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:40.993][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:40.995][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:40.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:40.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:40.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.006][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:41.008][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:41.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:41.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.019][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:41.020][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:41.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:41.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:41.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.031][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:41.033][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:41.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.035][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:41.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:41.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.043][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.044][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:41.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:41.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.070][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:41.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.076][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:41.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.082][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.084][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.094][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:41.096][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:41.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:41.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:41.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.107][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:41.108][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:41.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.113][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:41.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:41.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:41.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:41.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:41.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:41.187][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-19 06:21:41.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:41.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:41.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:41.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:41.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:41.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:41.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:41.219][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[2025-08-19 06:21:41.220][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-19 06:21:41.222][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:41.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-08-19 06:21:41.226][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:41.230][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-08-19 06:21:41.232][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:41.234][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:41.235][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:41.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:41.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:41.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:41.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:41.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:41.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:41.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:41.254][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.266][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:41.268][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:41.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.273][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:41.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:41.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.279][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:41.280][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:41.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:41.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:41.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:41.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:41.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:41.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:41.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.303][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.305][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.307][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:41.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:41.317][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:41.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.332][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:41.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.350][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:41.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.356][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.358][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.369][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:41.370][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:41.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:41.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:41.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.381][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:41.383][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:41.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:41.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:41.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.394][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:41.395][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:41.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:41.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:41.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:41.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:41.464][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-19 06:21:41.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:41.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:41.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:41.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:41.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:41.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:41.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:41.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:41.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:41.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:41.516][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[2025-08-19 06:21:41.517][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-19 06:21:41.519][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:41.521][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-08-19 06:21:41.528][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:41.538][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-08-19 06:21:41.541][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:41.542][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:41.544][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:41.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:41.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:41.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:41.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:41.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:41.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:41.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:41.626][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:42.001][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:42.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:42.015][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:42.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:42.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:42.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:42.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:42.152][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:42.154][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:42.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:42.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:43.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:50.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:50.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.904][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:50.906][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:50.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:50.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:50.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:50.938][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:50.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:50.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:50.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.949][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:50.951][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:50.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:50.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:50.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.962][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:50.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:50.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.969][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:50.970][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:50.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.975][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:50.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:50.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:50.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:50.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:50.983][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:51.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.006][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:51.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:51.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.016][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:51.017][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:51.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:51.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:51.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.029][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:51.031][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:51.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.035][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:51.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.042][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:51.043][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:51.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.048][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:51.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:51.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:51.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:51.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:51.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:51.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:51.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:51.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:51.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:51.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:51.115][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-19 06:21:51.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:51.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:51.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:51.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:51.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:51.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:51.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:51.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:51.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:51.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:51.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:51.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:51.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:51.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:21:51.230][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-19 06:21:53.882][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:21:53.931][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-08-19 06:21:53.958][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:53.961][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-08-19 06:21:53.964][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:21:53.966][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:21:53.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:21:53.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:53.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:53.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:53.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:53.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:53.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:53.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:54.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.020][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:54.021][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:54.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.029][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:21:54.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:21:54.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.036][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:54.038][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:54.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:21:54.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:21:54.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.052][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:54.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:54.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:21:54.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:21:54.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.067][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:54.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:54.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:21:54.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:21:54.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:54.082][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:21:54.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.088][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:54.089][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.095][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:21:54.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.102][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:54.104][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:54.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:54.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:21:54.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.117][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:54.135][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:54.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:21:54.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:21:54.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.148][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:54.150][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:54.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.155][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:21:54.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:21:54.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.162][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:54.164][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:54.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.169][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:21:54.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:21:54.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:54.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:54.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:54.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:54.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:21:54.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:21:54.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:21:54.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:21:54.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:54.238][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-19 06:21:54.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:54.306][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:21:54.332][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:21:54.334][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:21:54.336][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:21:54.340][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-19 06:21:54.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:54.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:54.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:54.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:54.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:54.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:54.368][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:21:54.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:54.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:54.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:54.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:54.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:54.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:54.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:54.407][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.TRACE[2025-08-19 06:21:54.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:54.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:54.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:54.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:54.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:54.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:54.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:54.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:21:54.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:21:54.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:21:54.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:21:54.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:21:54.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:21:54.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:21:54.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:21:54.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:21:55.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:21:57.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:21:58.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:11.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:11.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:11.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:11.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:11.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:11.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:11.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:11.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:11.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.058][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.TRACE[2025-08-19 06:22:12.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.092][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.TRACE[2025-08-19 06:22:12.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.126][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.TRACE[2025-08-19 06:22:12.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:12.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.195][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:22:12.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:12.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.377][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[2025-08-19 06:22:12.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:12.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:12.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:12.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:12.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:12.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:12.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:12.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:12.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:12.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:12.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:14.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:16.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:16.495][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:22:16.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:16.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:16.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:16.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:16.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:16.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:16.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:16.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:16.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:16.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:16.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:16.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:16.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:16.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:16.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:16.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:16.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:16.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:16.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:16.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:16.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:16.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:16.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:16.782][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:22:16.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:16.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:16.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:16.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:16.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:16.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:16.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:16.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:16.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:16.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:16.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:18.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:18.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:18.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:18.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:18.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:18.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:18.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:18.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:18.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:18.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:18.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:18.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:18.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:18.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:19.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:19.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:19.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:19.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:19.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:19.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:19.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:19.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:19.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:19.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:19.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:19.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:19.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:19.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:19.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:19.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:19.158][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:22:19.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:19.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:19.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:19.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:19.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:19.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:19.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:19.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:19.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:19.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:19.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:22.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:22.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:22.897][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:22:22.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:22.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:22.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:22.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:22.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:22.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:22.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:22.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:22.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:22.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:24.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:24.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:24.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:24.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:24.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:24.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:24.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:24.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:24.265][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:22:24.352][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:22:24.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-08-19 06:22:24.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:22:24.372][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-08-19 06:22:24.424][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:22:27.013][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:22:27.046][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-08-19 06:22:27.049][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:22:27.055][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-08-19 06:22:27.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:27.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:27.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:27.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:27.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:27.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:27.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:22:27.200][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-19 06:22:27.202][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:22:27.210][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-08-19 06:22:27.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:22:27.235][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-08-19 06:22:27.237][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:22:27.240][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:22:27.243][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:22:27.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:27.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:27.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:27.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:27.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:22:27.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:22:27.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:22:27.299][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.301][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.333][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:22:27.334][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:22:27.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.345][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:22:27.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:22:27.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.353][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:22:27.355][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:22:27.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.358][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:22:27.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:22:27.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.381][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:22:27.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:22:27.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:22:27.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:22:27.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.434][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:22:27.436][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:22:27.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:22:27.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:22:27.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.453][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:22:27.455][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:22:27.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.461][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:22:27.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:22:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.468][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:22:27.470][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:27.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.476][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:22:27.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:22:27.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.484][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.486][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.500][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:22:27.502][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:22:27.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:22:27.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:22:27.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.514][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:22:27.516][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:22:27.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:22:27.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:22:27.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.528][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:22:27.530][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:22:27.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:22:27.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:22:27.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:22:27.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:22:27.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:22:27.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:22:27.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:22:27.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:22:27.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:22:27.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:22:27.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:27.612][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-19 06:22:27.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:22:27.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:22:27.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:22:27.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:22:27.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:22:27.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:22:27.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:22:31.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:22:31.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:04.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:05.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:05.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:07.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:08.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:08.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:08.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:08.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:08.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:08.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:08.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:08.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:08.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:08.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:08.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:08.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:08.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:08.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:08.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:08.122][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[2025-08-19 06:23:08.124][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-19 06:23:08.126][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:23:08.148][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-08-19 06:23:08.191][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:23:08.203][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-08-19 06:23:08.205][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:23:08.208][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:23:08.210][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:23:08.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:08.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:08.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:08.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:08.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:08.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:08.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:08.310][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:08.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:08.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:08.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:08.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:08.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:08.489][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:23:12.944][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:23:12.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:12.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:12.976][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:23:12.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:23:12.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:12.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:12.983][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:23:12.984][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:23:12.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:12.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:12.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:23:12.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:23:12.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:12.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:12.995][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:23:12.997][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:23:12.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:12.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:23:13.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:23:13.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.007][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:23:13.009][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:23:13.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:23:13.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:23:13.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.019][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:23:13.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:23:13.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.025][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:23:13.027][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:23:13.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.031][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:23:13.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:23:13.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.039][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.049][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:23:13.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:23:13.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:23:13.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:23:13.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.062][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:23:13.063][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:23:13.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.068][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:23:13.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:23:13.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.074][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:23:13.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:23:13.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:23:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:23:13.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:23:13.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:23:13.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:23:13.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:23:13.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:23:13.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:23:13.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:23:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:23:13.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:13.143][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-19 06:23:13.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:13.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:13.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:13.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:13.343][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:23:14.940][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:23:15.014][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:23:15.052][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:23:15.066][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-19 06:23:15.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:15.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:15.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:15.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:15.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:15.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:15.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:15.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:15.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:15.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:15.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:15.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:15.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:15.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:15.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:15.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:15.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:21.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:24.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:24.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:24.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:25.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:25.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:25.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:25.992][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[2025-08-19 06:23:25.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:25.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:26.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:26.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:26.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:26.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:26.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:26.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:26.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:26.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:26.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:26.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:26.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:26.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:26.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:26.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:26.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:26.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:27.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:27.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:27.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:27.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:27.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:27.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:27.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:27.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:27.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:27.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:27.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:37.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:37.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:37.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:37.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:37.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:37.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:38.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:38.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:38.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:38.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:38.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:38.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:38.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:38.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:38.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:38.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:38.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:38.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:38.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:38.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:38.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:38.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:38.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:38.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:49.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:49.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:50.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:50.010][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.TRACE[2025-08-19 06:23:50.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:50.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:50.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:50.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:50.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:50.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:50.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:50.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:50.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:50.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:50.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:50.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:50.088][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:23:50.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:50.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:50.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:50.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:50.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:50.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:50.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:50.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:50.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:50.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:50.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:50.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:50.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:50.995][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.TRACE[2025-08-19 06:23:51.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:51.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:51.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:51.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:51.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:51.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:51.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:51.069][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:23:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:51.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:51.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:51.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:51.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:51.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:51.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:51.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:51.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:51.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:51.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:51.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:51.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:51.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:51.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:51.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:51.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:51.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:51.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:51.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:51.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:51.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:51.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:51.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:51.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:51.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:51.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:51.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:51.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:51.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.020][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.TRACE[2025-08-19 06:23:55.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.060][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[2025-08-19 06:23:55.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.113][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.TRACE[2025-08-19 06:23:55.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.147][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:23:55.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:55.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.240][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:23:55.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.280][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:23:55.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.313][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:23:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.360][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:23:55.542][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:23:55.603][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-19 06:23:55.605][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:23:55.658][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-19 06:23:55.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.871][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.TRACE[2025-08-19 06:23:55.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:55.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:55.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:55.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:55.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:55.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:23:55.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:23:55.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:23:55.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:55.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:55.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:55.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:56.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:56.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:56.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:56.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:56.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:56.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:56.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:23:56.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:56.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:23:56.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:23:56.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:23:56.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:23:56.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:23:56.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:23:56.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:23:56.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:00.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:00.978][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:00.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:00.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:00.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:00.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:00.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:01.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:01.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:01.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:01.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:01.119][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.TRACE[2025-08-19 06:24:01.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:01.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:01.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:01.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:01.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:01.192][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[2025-08-19 06:24:01.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:01.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:01.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:01.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:01.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:01.231][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.TRACE[2025-08-19 06:24:01.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:01.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:01.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:01.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:01.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:01.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:01.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:01.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:01.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:01.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:01.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:01.309][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:01.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:01.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:01.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:01.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:01.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:01.390][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[2025-08-19 06:24:01.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:01.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:01.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:01.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:01.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:01.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:02.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:05.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:06.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:06.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:07.004][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:07.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:07.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:07.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:07.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:07.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:07.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:07.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:07.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:07.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:07.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:07.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:07.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:07.141][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:07.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:07.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:07.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:07.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:07.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:07.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:07.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:07.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:15.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:15.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:15.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:15.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:15.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:15.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:15.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:15.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:15.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:15.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:15.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:15.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:15.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:15.175][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.TRACE[2025-08-19 06:24:15.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:15.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:15.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:15.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:15.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:15.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:15.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:15.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:15.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:15.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:15.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:15.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:15.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:15.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:15.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:15.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:15.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:19.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:19.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:19.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:22.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:22.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:22.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:22.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:22.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:22.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:22.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:22.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:22.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:22.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:22.145][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:22.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:22.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:22.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:22.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:22.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:22.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:22.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:22.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:22.239][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:22.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:22.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:22.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:22.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:22.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:22.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:22.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:22.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:22.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:22.379][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.TRACE[2025-08-19 06:24:33.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:33.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:33.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:33.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:33.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:33.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:33.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:33.203][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.TRACE[2025-08-19 06:24:33.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:33.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:33.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:33.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:33.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:33.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:33.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:33.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:33.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:24:33.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.305][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-19 06:24:33.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-19 06:24:33.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-19 06:24:33.325][biodb::testThat]
biodb.INFO [2025-08-19 06:24:33.326][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-19 06:24:33.333][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:24:33.336][biodb::testThat]
biodb.TRACE[2025-08-19 06:24:33.377][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-19 06:24:33.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-19 06:24:33.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:33.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:33.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:33.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:33.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:33.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:33.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:33.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:33.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:33.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:33.502][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[2025-08-19 06:24:33.511][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:24:33.627][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:24:33.630][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-19 06:24:33.632][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:24:33.653][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-19 06:24:33.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:33.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:33.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:33.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:42.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:43.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:43.023][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:43.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:43.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:43.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:43.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:43.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:43.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:43.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:43.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:43.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:43.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:43.053][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:24:43.141][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:24:43.143][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-19 06:24:43.150][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:24:43.179][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-19 06:24:45.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:45.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:45.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:45.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:45.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:45.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:45.100][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[2025-08-19 06:24:45.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:45.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:45.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:45.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:45.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:45.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:45.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:45.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:45.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:45.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:45.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:45.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:45.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:45.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:45.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:45.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:24:45.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:45.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:24:45.322][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-19 06:24:45.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:45.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:45.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:52.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:52.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:52.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:52.022][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:24:52.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.038][private$selectFields]
biodb.TRACE[2025-08-19 06:24:52.039][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:24:52.040][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:24:52.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.056][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.067][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.075][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:24:52.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.119][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-19 06:24:52.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:52.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:52.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:52.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:52.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:52.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:52.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:24:52.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.215][private$selectFields]
biodb.TRACE[2025-08-19 06:24:52.221][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:24:52.223][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:24:52.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.237][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.247][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.249][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.251][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.259][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:24:52.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.282][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-19 06:24:52.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:24:52.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:24:52.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:24:52.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:24:52.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:24:52.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:24:52.299][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.TRACE[2025-08-19 06:24:52.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.314][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.316][private$selectFields]
biodb.TRACE[2025-08-19 06:24:52.317][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:24:52.319][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:24:52.321][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.322][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.329][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.331][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:24:52.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:24:52.336][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.345][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:24:52.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:24:52.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.101][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:06.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:06.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.134][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-19 06:25:06.136][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-19 06:25:06.138][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-19 06:25:06.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:06.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:06.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:06.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:06.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:06.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:06.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:06.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:06.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:06.337][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:06.407][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:10.011][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-19 06:25:10.043][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:10.049][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-19 06:25:10.083][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:10.176][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:10.178][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-19 06:25:10.183][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:10.189][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-19 06:25:10.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:10.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:10.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:10.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.316][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.TRACE[2025-08-19 06:25:10.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:10.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:10.377][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-19 06:25:10.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.432][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[2025-08-19 06:25:10.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.450][private$selectFields]
biodb.TRACE[2025-08-19 06:25:10.452][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:10.454][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:10.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.457][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.463][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.468][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.470][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.473][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.477][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.496][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-19 06:25:10.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:10.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.585][private$selectFields]
biodb.TRACE[2025-08-19 06:25:10.586][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:10.587][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:10.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.590][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.594][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.617][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.626][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:10.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.645][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-19 06:25:10.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:10.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.674][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.676][private$selectFields]
biodb.TRACE[2025-08-19 06:25:10.677][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:10.678][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:10.680][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.694][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:10.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.702][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:10.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.721][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-19 06:25:10.723][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-19 06:25:10.724][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-19 06:25:10.737][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-19 06:25:10.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-19 06:25:10.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-19 06:25:10.747][biodb::testThat]
biodb.INFO [2025-08-19 06:25:10.749][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-19 06:25:10.750][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:10.751][biodb::testThat]
biodb.TRACE[2025-08-19 06:25:10.773][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-19 06:25:10.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-19 06:25:10.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:10.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:10.854][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:10.859][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:10.861][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-19 06:25:10.863][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:10.881][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-19 06:25:10.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:10.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:10.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:10.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:10.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:10.932][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.TRACE[2025-08-19 06:25:10.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:10.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:10.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:10.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:10.977][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:10.982][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:10.984][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-19 06:25:10.986][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:10.992][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-19 06:25:10.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:10.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:11.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:11.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:11.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:11.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:11.126][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-19 06:25:11.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.156][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.TRACE[2025-08-19 06:25:11.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.200][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.203][private$selectFields]
biodb.TRACE[2025-08-19 06:25:11.205][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:11.206][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:11.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.210][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.216][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.224][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.225][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.227][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.232][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:11.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.254][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-19 06:25:11.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:11.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.295][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.297][private$selectFields]
biodb.TRACE[2025-08-19 06:25:11.298][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:11.300][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:11.302][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.304][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.306][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.316][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.318][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.319][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.343][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.352][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:11.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-19 06:25:11.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.389][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.TRACE[2025-08-19 06:25:11.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.405][private$selectFields]
biodb.TRACE[2025-08-19 06:25:11.407][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:11.408][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:11.410][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.411][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.425][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.428][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.433][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:11.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.454][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-19 06:25:11.455][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-19 06:25:11.456][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-19 06:25:11.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:11.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:11.520][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:11.527][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:11.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-19 06:25:11.532][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:11.557][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-19 06:25:11.568][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:11.582][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:11.584][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-19 06:25:11.591][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:11.601][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-19 06:25:11.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.637][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.TRACE[2025-08-19 06:25:11.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:11.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.706][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:25:11.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:11.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:11.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:11.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:11.774][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-19 06:25:11.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.790][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:25:11.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.805][private$selectFields]
biodb.TRACE[2025-08-19 06:25:11.807][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:11.808][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:11.809][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.823][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.825][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.826][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.830][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:11.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.851][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-19 06:25:11.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:11.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.881][private$selectFields]
biodb.TRACE[2025-08-19 06:25:11.883][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:11.884][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:11.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.902][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.903][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.910][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:11.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.931][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-19 06:25:11.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:11.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:11.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:11.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:11.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:11.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:11.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:11.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.965][private$selectFields]
biodb.TRACE[2025-08-19 06:25:11.966][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:11.968][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:11.969][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.986][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:11.988][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:11.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:11.994][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:11.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:11.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.020][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-19 06:25:12.022][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-19 06:25:12.023][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-19 06:25:12.055][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-19 06:25:12.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-19 06:25:12.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-19 06:25:12.069][biodb::testThat]
biodb.INFO [2025-08-19 06:25:12.070][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-19 06:25:12.071][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:12.073][biodb::testThat]
biodb.TRACE[2025-08-19 06:25:12.079][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-19 06:25:12.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-19 06:25:12.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:12.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:12.154][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:12.158][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-19 06:25:12.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:12.162][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-19 06:25:12.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:12.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.210][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:12.217][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:12.219][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-19 06:25:12.223][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:12.225][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-19 06:25:12.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.244][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.TRACE[2025-08-19 06:25:12.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.295][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.TRACE[2025-08-19 06:25:12.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:12.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.327][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-19 06:25:12.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.359][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.TRACE[2025-08-19 06:25:12.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.375][private$selectFields]
biodb.TRACE[2025-08-19 06:25:12.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:12.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:12.379][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.392][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.394][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.395][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.409][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:12.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.433][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-19 06:25:12.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:12.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.464][private$selectFields]
biodb.TRACE[2025-08-19 06:25:12.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:12.467][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:12.468][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.470][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.482][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.483][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.491][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.513][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-19 06:25:12.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:12.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.543][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.545][private$selectFields]
biodb.TRACE[2025-08-19 06:25:12.546][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:12.548][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:12.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.557][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.559][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.563][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.565][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.572][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:12.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.591][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-19 06:25:12.592][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-19 06:25:12.594][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-19 06:25:12.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:12.673][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:12.678][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:12.680][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-19 06:25:12.692][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:12.694][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-19 06:25:12.699][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:12.705][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:12.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-19 06:25:12.709][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:12.711][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-19 06:25:12.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.731][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:25:12.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.764][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:25:12.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.797][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.TRACE[2025-08-19 06:25:12.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:12.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:12.815][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-19 06:25:12.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:12.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.845][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.847][private$selectFields]
biodb.TRACE[2025-08-19 06:25:12.848][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:12.849][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:12.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.854][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.865][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.872][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:12.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-19 06:25:12.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:12.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.922][private$selectFields]
biodb.TRACE[2025-08-19 06:25:12.923][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:12.924][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:12.926][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.940][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:12.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.947][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:12.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:12.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:12.978][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-19 06:25:12.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:12.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:12.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:12.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:12.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:12.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:12.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:12.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:12.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:13.010][private$selectFields]
biodb.TRACE[2025-08-19 06:25:13.011][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-19 06:25:13.012][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-19 06:25:13.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:13.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.017][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.026][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:13.028][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-19 06:25:13.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.035][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-19 06:25:13.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.053][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-19 06:25:13.055][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-19 06:25:13.056][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-19 06:25:13.085][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-19 06:25:13.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-19 06:25:13.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-19 06:25:13.096][biodb::testThat]
biodb.INFO [2025-08-19 06:25:13.097][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-19 06:25:13.099][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:13.100][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:13.103][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-19 06:25:13.104][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:25:13.107][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-08-19 06:25:13.109][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:13.112][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-08-19 06:25:13.114][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:25:13.116][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:25:13.118][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:25:13.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:13.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:13.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:13.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:13.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:13.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:13.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:13.138][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:13.153][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:13.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.159][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:13.161][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:13.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.166][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:13.167][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:13.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.174][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.184][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:13.186][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:13.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.190][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.192][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.200][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:13.202][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:13.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.206][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:13.208][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:13.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.212][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:13.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:13.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:13.283][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-19 06:25:13.284][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-19 06:25:13.295][biodb::testThat]
biodb.INFO [2025-08-19 06:25:13.296][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-19 06:25:13.298][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:13.299][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:13.313][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-08-19 06:25:13.315][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-08-19 06:25:13.316][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-08-19 06:25:13.319][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-08-19 06:25:13.322][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-08-19 06:25:13.329][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-08-19 06:25:13.330][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:25:13.332][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-19 06:25:13.334][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-19 06:25:13.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:13.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:13.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:13.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:13.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:13.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:13.349][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:25:13.352][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.354][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.365][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:13.366][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:13.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.369][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.371][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:13.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:13.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.377][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:13.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:13.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.383][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.384][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.389][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.390][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.395][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:13.396][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:13.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.401][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.402][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.407][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:13.409][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:13.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:13.416][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:13.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:13.422][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:13.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:13.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:13.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:13.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:13.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:13.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:13.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:13.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:13.483][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.484][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.495][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:13.496][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:13.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.501][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:13.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:13.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.518][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:13.520][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:13.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:13.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:13.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.531][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:13.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:13.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:13.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:13.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.544][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.546][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.559][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.564][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.570][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:13.572][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:13.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.576][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:13.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:13.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.583][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.596][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:13.597][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:13.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:13.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:13.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.609][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:13.610][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:13.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.615][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:13.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:13.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.621][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:13.623][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:13.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:13.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:13.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:13.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:13.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:13.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:13.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:13.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:13.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:13.708][FUN] Functions in observer BiodbConfig: [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[2025-08-19 06:25:13.712][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.714][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.726][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:13.728][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:13.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.734][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:13.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:13.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.741][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:13.743][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:13.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:13.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:13.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.755][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:13.757][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:13.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:13.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:13.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.769][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:13.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.783][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.784][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:13.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.796][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:13.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:13.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.803][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:13.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:13.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.827][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:13.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.843][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:13.845][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:13.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:13.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:13.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.857][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:13.859][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:13.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:13.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:13.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.871][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:13.872][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:13.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.877][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:13.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:13.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:13.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:13.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:13.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:13.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:13.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:13.986][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-08-19 06:25:13.988][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-19 06:25:13.989][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-08-19 06:25:14.009][biodb::testThat]
biodb.INFO [2025-08-19 06:25:14.010][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-19 06:25:14.012][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:14.014][biodb::testThat]
biodb.INFO [2025-08-19 06:25:14.049][biodb::testThat]
biodb.INFO [2025-08-19 06:25:14.051][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-19 06:25:14.052][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:14.054][biodb::testThat]
biodb.INFO [2025-08-19 06:25:14.066][biodb::testThat]
biodb.INFO [2025-08-19 06:25:14.067][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-19 06:25:14.069][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:14.070][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:14.074][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:14.079][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:14.081][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-08-19 06:25:14.084][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:14.087][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-08-19 06:25:14.114][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:14.116][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:14.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:14.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:14.121][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:14.123][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:14.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:14.126][ef$get] fields variable is a list.
biodb.INFO [2025-08-19 06:25:14.128][biodb::testThat]
biodb.INFO [2025-08-19 06:25:14.130][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-19 06:25:14.131][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:14.133][biodb::testThat]
biodb.ERROR[2025-08-19 06:25:14.154][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-19 06:25:14.179][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-19 06:25:14.198][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-19 06:25:14.200][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-19 06:25:14.201][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-19 06:25:14.203][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-19 06:25:14.204][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.207][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.210][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-19 06:25:14.229][biodb::testContext]
biodb.INFO [2025-08-19 06:25:14.230][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:25:14.232][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-08-19 06:25:14.234][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:25:14.235][biodb::testContext]
biodb.INFO [2025-08-19 06:25:14.239][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:25:14.243][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-19 06:25:14.249][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:14.250][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-19 06:25:14.252][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-19 06:25:14.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.259][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-19 06:25:14.260][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-19 06:25:14.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.265][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[2025-08-19 06:25:14.267][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-19 06:25:14.269][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-19 06:25:14.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.275][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-19 06:25:14.277][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-19 06:25:14.279][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-19 06:25:14.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.286][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-19 06:25:14.287][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-19 06:25:14.289][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-19 06:25:14.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.294][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-19 06:25:14.296][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-19 06:25:14.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.302][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-19 06:25:14.303][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-19 06:25:14.305][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-19 06:25:14.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.311][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-19 06:25:14.313][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-19 06:25:14.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.318][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-19 06:25:14.320][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-19 06:25:14.322][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-19 06:25:14.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.328][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:25:14.329][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-19 06:25:14.331][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-19 06:25:14.332][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-19 06:25:14.334][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-19 06:25:14.336][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-19 06:25:14.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.342][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-19 06:25:14.343][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-19 06:25:14.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.349][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-19 06:25:14.351][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-19 06:25:14.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.358][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-19 06:25:14.359][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-19 06:25:14.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.365][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-19 06:25:14.367][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-19 06:25:14.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.373][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-19 06:25:14.374][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-19 06:25:14.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.380][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:25:14.382][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-19 06:25:14.388][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-19 06:25:14.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.394][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-19 06:25:14.395][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-19 06:25:14.407][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-19 06:25:14.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.413][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-19 06:25:14.416][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.418][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-19 06:25:14.419][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.421][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:14.422][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.423][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.425][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.426][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.428][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:25:14.429][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:14.430][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.432][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-19 06:25:14.433][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:14.435][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.436][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.438][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:14.438][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:14.438][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:14.438][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:25:14.438][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:25:14.439][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:14.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.443][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:14.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.446][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.447][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.448][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:14.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:14.452][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.453][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.455][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-19 06:25:14.458][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.459][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:25:14.461][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.462][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:14.464][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.465][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.467][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.468][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.469][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:25:14.471][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:14.472][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.474][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-19 06:25:14.475][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:14.477][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.479][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.480][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:14.480][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:14.480][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:14.480][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:25:14.480][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:25:14.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:14.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.486][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:14.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.490][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.491][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:14.494][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:14.495][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.497][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.499][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-19 06:25:14.501][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.503][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-19 06:25:14.504][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.506][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:14.507][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.509][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.511][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.512][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.514][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:25:14.515][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:14.517][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.519][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-19 06:25:14.520][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:14.522][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.524][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.525][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.527][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:14.528][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.530][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.531][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:14.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.534][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.535][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.537][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.538][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:14.539][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:14.541][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.542][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.543][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-19 06:25:14.546][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.547][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:25:14.549][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.550][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:14.551][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.553][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.554][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.556][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.557][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:25:14.558][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:14.560][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.562][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-19 06:25:14.563][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:14.564][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.566][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:14.567][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.568][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:14.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.572][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:14.574][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:14.575][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:14.576][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:14.578][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.579][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:14.580][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:14.582][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:14.584][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:14.586][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:14.588][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.589][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[2025-08-19 06:25:14.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.610][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[2025-08-19 06:25:14.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.638][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[2025-08-19 06:25:14.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.676][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[2025-08-19 06:25:14.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.689][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[2025-08-19 06:25:14.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.696][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[2025-08-19 06:25:14.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.703][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[2025-08-19 06:25:14.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.709][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[2025-08-19 06:25:14.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.716][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[2025-08-19 06:25:14.718][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-19 06:25:14.720][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-19 06:25:14.722][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-19 06:25:14.725][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-19 06:25:14.727][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:25:14.729][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-19 06:25:14.731][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-19 06:25:14.733][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-19 06:25:14.735][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-19 06:25:14.737][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-19 06:25:14.740][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:25:14.742][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-19 06:25:14.745][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-19 06:25:14.747][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-19 06:25:14.749][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-19 06:25:14.752][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-19 06:25:14.754][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-19 06:25:14.756][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-19 06:25:14.758][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:25:14.760][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-19 06:25:14.763][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-19 06:25:14.765][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-19 06:25:14.768][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-19 06:25:14.770][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-19 06:25:14.772][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-19 06:25:14.774][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-19 06:25:14.776][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-19 06:25:14.778][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-19 06:25:14.780][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-19 06:25:14.782][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-19 06:25:14.784][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-19 06:25:14.786][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-19 06:25:14.788][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-19 06:25:14.790][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-19 06:25:14.792][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-19 06:25:14.794][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-19 06:25:14.797][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-19 06:25:14.799][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-19 06:25:14.801][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-19 06:25:14.803][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-19 06:25:14.805][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-19 06:25:14.807][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-19 06:25:14.809][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-19 06:25:14.811][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-19 06:25:14.813][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-19 06:25:14.815][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-19 06:25:14.817][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-19 06:25:14.819][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-19 06:25:14.821][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-19 06:25:14.823][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-19 06:25:14.825][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-19 06:25:14.827][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-19 06:25:14.829][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-19 06:25:14.831][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-19 06:25:14.834][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-19 06:25:14.836][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-19 06:25:14.838][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-19 06:25:14.840][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-19 06:25:14.842][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-19 06:25:14.844][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-19 06:25:14.846][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-19 06:25:14.848][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-19 06:25:14.850][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-19 06:25:14.852][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-19 06:25:14.855][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-19 06:25:14.857][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-19 06:25:14.859][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:25:14.861][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:25:14.863][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-19 06:25:14.865][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-19 06:25:14.867][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-19 06:25:14.870][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-19 06:25:14.872][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-19 06:25:14.874][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-19 06:25:14.876][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-19 06:25:14.878][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-19 06:25:14.881][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-19 06:25:14.883][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-19 06:25:14.885][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-19 06:25:14.887][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-19 06:25:14.890][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-19 06:25:14.892][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-19 06:25:14.894][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-19 06:25:14.897][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-19 06:25:14.899][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:25:14.901][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:14.902][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.905][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.906][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[2025-08-19 06:25:14.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.965][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[2025-08-19 06:25:14.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.975][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[2025-08-19 06:25:14.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.985][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.DEBUG[2025-08-19 06:25:14.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:14.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:14.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:14.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:14.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:14.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:14.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:14.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.087][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-19 06:25:15.089][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-19 06:25:15.092][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.094][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.095][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.097][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:15.098][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.100][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.101][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.102][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-19 06:25:15.104][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-19 06:25:15.105][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:15.107][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.108][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-19 06:25:15.110][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-19 06:25:15.111][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-19 06:25:15.113][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.114][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:15.114][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:15.114][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:15.116][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-19 06:25:15.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:15.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.124][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.126][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:25:15.126][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-19 06:25:15.127][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:15.128][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:15.130][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.131][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-19 06:25:15.131][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-19 06:25:15.133][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:25:15.135][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:25:15.138][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-19 06:25:15.140][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:25:15.142][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:25:15.145][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:25:15.150][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-19 06:25:15.151][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-19 06:25:15.153][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-19 06:25:15.155][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-19 06:25:15.157][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:25:15.159][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:25:15.160][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-19 06:25:15.162][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-19 06:25:15.164][biodb::testThat]
biodb.INFO [2025-08-19 06:25:15.165][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-08-19 06:25:15.167][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:15.168][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:15.173][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-19 06:25:15.178][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.180][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-19 06:25:15.182][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.185][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-19 06:25:15.200][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.205][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-08-19 06:25:15.208][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.211][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-08-19 06:25:15.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.228][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.233][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.235][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-08-19 06:25:15.236][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.239][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-08-19 06:25:15.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.298][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.303][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.305][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-08-19 06:25:15.307][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.308][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-08-19 06:25:15.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.323][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[2025-08-19 06:25:15.326][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.330][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.332][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-08-19 06:25:15.334][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.335][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-08-19 06:25:15.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.365][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[2025-08-19 06:25:15.370][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.375][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.377][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-08-19 06:25:15.378][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.380][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-08-19 06:25:15.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.398][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.402][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.404][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-08-19 06:25:15.406][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.408][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-08-19 06:25:15.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.423][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[2025-08-19 06:25:15.425][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.430][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.432][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-08-19 06:25:15.434][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.437][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-08-19 06:25:15.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.463][FUN] Functions in observer BiodbConfig: [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 [2025-08-19 06:25:15.472][biodb::testThat]
biodb.INFO [2025-08-19 06:25:15.473][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-08-19 06:25:15.474][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:15.476][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:15.480][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.485][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.487][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-08-19 06:25:15.489][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.491][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-08-19 06:25:15.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.506][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[2025-08-19 06:25:15.512][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:15.518][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:15.520][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-08-19 06:25:15.522][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:15.524][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-08-19 06:25:15.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:15.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-19 06:25:15.547][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-19 06:25:15.548][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-19 06:25:15.550][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-19 06:25:15.551][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-19 06:25:15.552][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:15.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:15.555][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.557][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.559][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.INFO [2025-08-19 06:25:15.564][biodb::testContext]
biodb.INFO [2025-08-19 06:25:15.565][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:25:15.566][biodb::testContext] Test context - Test web services
biodb.INFO [2025-08-19 06:25:15.568][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:25:15.569][biodb::testContext]
biodb.INFO [2025-08-19 06:25:15.572][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:25:15.574][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-19 06:25:15.579][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:15.580][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-19 06:25:15.582][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-19 06:25:15.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.587][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-19 06:25:15.588][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-19 06:25:15.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.592][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.DEBUG[2025-08-19 06:25:15.593][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-19 06:25:15.595][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-19 06:25:15.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.600][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-19 06:25:15.601][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-19 06:25:15.602][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-19 06:25:15.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.608][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-19 06:25:15.609][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-19 06:25:15.610][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-19 06:25:15.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.615][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-19 06:25:15.617][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-19 06:25:15.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.621][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[2025-08-19 06:25:15.622][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-19 06:25:15.623][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-19 06:25:15.625][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-19 06:25:15.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.630][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-19 06:25:15.631][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-19 06:25:15.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.636][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-19 06:25:15.638][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-19 06:25:15.639][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-19 06:25:15.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.644][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:25:15.646][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-19 06:25:15.647][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-19 06:25:15.648][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-19 06:25:15.650][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-19 06:25:15.651][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-19 06:25:15.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.656][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-19 06:25:15.658][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-19 06:25:15.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.662][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-19 06:25:15.664][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-19 06:25:15.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.669][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-19 06:25:15.670][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-19 06:25:15.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.675][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-19 06:25:15.677][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-19 06:25:15.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.682][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-19 06:25:15.683][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-19 06:25:15.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.688][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:25:15.690][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-19 06:25:15.695][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-19 06:25:15.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.700][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-19 06:25:15.701][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-19 06:25:15.712][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-19 06:25:15.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.718][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-19 06:25:15.721][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.722][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-19 06:25:15.724][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.725][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:15.726][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.728][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.729][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.730][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.732][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:25:15.733][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:15.735][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.736][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-19 06:25:15.737][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:15.739][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.740][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.741][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:15.741][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:15.741][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:15.741][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:25:15.741][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:25:15.743][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:15.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.747][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:15.748][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.749][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.751][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.752][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.753][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:15.754][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:15.756][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.757][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.759][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-19 06:25:15.761][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.763][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:25:15.764][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.766][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:15.767][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.768][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.770][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.771][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.772][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:25:15.774][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:15.775][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.777][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-19 06:25:15.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:15.779][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.781][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.782][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:15.782][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:15.782][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:15.782][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:25:15.782][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:25:15.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:15.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.787][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:15.789][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.790][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.791][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.792][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.794][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:15.795][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:15.796][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.798][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.799][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-19 06:25:15.802][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.803][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-19 06:25:15.804][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.806][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:15.807][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.808][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.810][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.811][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.812][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:25:15.814][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:15.815][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.817][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-19 06:25:15.818][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:15.819][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.821][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.822][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.823][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:15.825][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.827][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:15.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.830][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.831][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.832][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.834][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:15.835][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:15.836][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.837][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.839][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-19 06:25:15.842][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.843][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:25:15.844][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.846][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:15.847][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.849][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.850][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.851][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.853][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:25:15.854][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:15.855][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.857][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-19 06:25:15.858][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:15.859][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.861][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:15.862][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:15.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.867][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:15.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:15.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:15.871][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:15.872][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.874][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:15.875][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:15.876][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:15.878][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:15.879][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:15.881][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.894][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[2025-08-19 06:25:15.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.906][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[2025-08-19 06:25:15.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.912][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[2025-08-19 06:25:15.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.919][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[2025-08-19 06:25:15.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.925][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[2025-08-19 06:25:15.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.931][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[2025-08-19 06:25:15.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.985][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.DEBUG[2025-08-19 06:25:15.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.992][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[2025-08-19 06:25:15.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:15.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:15.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:15.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:15.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:15.999][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-19 06:25:16.001][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-19 06:25:16.003][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-19 06:25:16.005][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-19 06:25:16.007][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:25:16.009][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-19 06:25:16.011][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-19 06:25:16.013][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-19 06:25:16.015][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-19 06:25:16.017][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-19 06:25:16.019][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:25:16.021][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-19 06:25:16.023][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-19 06:25:16.025][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-19 06:25:16.027][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-19 06:25:16.029][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-19 06:25:16.031][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-19 06:25:16.033][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-19 06:25:16.035][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:25:16.037][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-19 06:25:16.039][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-19 06:25:16.041][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-19 06:25:16.043][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-19 06:25:16.045][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-19 06:25:16.047][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-19 06:25:16.049][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-19 06:25:16.051][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-19 06:25:16.053][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-19 06:25:16.055][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-19 06:25:16.057][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-19 06:25:16.059][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-19 06:25:16.061][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-19 06:25:16.063][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-19 06:25:16.065][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-19 06:25:16.067][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-19 06:25:16.069][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-19 06:25:16.071][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-19 06:25:16.074][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-19 06:25:16.076][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-19 06:25:16.078][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-19 06:25:16.080][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-19 06:25:16.082][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-19 06:25:16.084][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-19 06:25:16.086][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-19 06:25:16.088][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-19 06:25:16.090][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-19 06:25:16.092][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-19 06:25:16.094][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-19 06:25:16.096][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-19 06:25:16.098][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-19 06:25:16.100][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-19 06:25:16.102][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-19 06:25:16.104][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-19 06:25:16.106][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-19 06:25:16.108][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-19 06:25:16.110][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-19 06:25:16.112][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-19 06:25:16.114][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-19 06:25:16.116][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-19 06:25:16.118][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-19 06:25:16.120][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-19 06:25:16.122][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-19 06:25:16.124][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-19 06:25:16.126][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-19 06:25:16.128][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-19 06:25:16.130][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-19 06:25:16.132][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:25:16.134][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:25:16.136][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-19 06:25:16.138][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-19 06:25:16.140][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-19 06:25:16.142][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-19 06:25:16.144][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-19 06:25:16.146][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-19 06:25:16.148][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-19 06:25:16.150][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-19 06:25:16.152][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-19 06:25:16.154][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-19 06:25:16.156][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-19 06:25:16.158][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-19 06:25:16.160][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-19 06:25:16.162][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-19 06:25:16.164][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-19 06:25:16.166][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-19 06:25:16.168][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:25:16.170][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:16.171][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.173][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.175][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[2025-08-19 06:25:16.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.462][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[2025-08-19 06:25:16.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.512][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[2025-08-19 06:25:16.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.545][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[2025-08-19 06:25:16.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.562][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[2025-08-19 06:25:16.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.571][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[2025-08-19 06:25:16.573][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-19 06:25:16.575][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-19 06:25:16.577][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.579][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.580][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.582][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:16.583][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.584][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.586][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.587][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-19 06:25:16.588][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-19 06:25:16.590][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:16.592][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.593][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-19 06:25:16.595][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-19 06:25:16.596][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-19 06:25:16.598][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.600][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:16.600][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:16.600][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:16.601][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-19 06:25:16.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.606][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:16.607][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.608][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.610][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.611][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:25:16.611][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-19 06:25:16.613][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:16.614][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:16.616][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.617][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-19 06:25:16.617][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-19 06:25:16.619][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:25:16.621][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:25:16.624][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-19 06:25:16.626][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:25:16.628][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:25:16.630][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:25:16.635][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-19 06:25:16.637][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-19 06:25:16.638][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-19 06:25:16.640][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-19 06:25:16.642][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:25:16.643][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:25:16.645][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-19 06:25:16.647][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-19 06:25:16.649][biodb::testThat]
biodb.INFO [2025-08-19 06:25:16.650][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-08-19 06:25:16.651][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:16.653][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:16.657][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-19 06:25:16.662][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:16.664][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-19 06:25:16.666][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:16.667][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-19 06:25:16.672][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:16.685][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:16.687][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-08-19 06:25:16.689][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:16.691][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-08-19 06:25:16.703][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-19 06:25:16.705][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-19 06:25:16.706][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-19 06:25:16.708][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-19 06:25:16.709][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:16.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:16.712][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:16.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:16.714][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.716][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.INFO [2025-08-19 06:25:16.721][biodb::testContext]
biodb.INFO [2025-08-19 06:25:16.723][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:25:16.724][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-08-19 06:25:16.725][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-19 06:25:16.727][biodb::testContext]
biodb.INFO [2025-08-19 06:25:16.729][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:25:16.732][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-19 06:25:16.736][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:16.738][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-19 06:25:16.739][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-19 06:25:16.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.744][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-19 06:25:16.746][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-19 06:25:16.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.749][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[2025-08-19 06:25:16.751][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-19 06:25:16.752][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-19 06:25:16.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.757][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-19 06:25:16.759][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-19 06:25:16.760][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-19 06:25:16.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.763][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[2025-08-19 06:25:16.765][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-19 06:25:16.766][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-19 06:25:16.768][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-19 06:25:16.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.772][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-19 06:25:16.774][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-19 06:25:16.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.777][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[2025-08-19 06:25:16.779][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-19 06:25:16.780][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-19 06:25:16.781][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-19 06:25:16.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.786][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-19 06:25:16.788][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-19 06:25:16.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.792][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-19 06:25:16.794][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-19 06:25:16.795][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-19 06:25:16.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.800][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:25:16.801][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-19 06:25:16.803][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-19 06:25:16.804][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-19 06:25:16.805][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-19 06:25:16.807][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-19 06:25:16.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.811][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[2025-08-19 06:25:16.812][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-19 06:25:16.813][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-19 06:25:16.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.818][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-19 06:25:16.820][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-19 06:25:16.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.825][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-19 06:25:16.826][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-19 06:25:16.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.831][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-19 06:25:16.833][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-19 06:25:16.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.838][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-19 06:25:16.839][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-19 06:25:16.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.844][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-19 06:25:16.846][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-19 06:25:16.851][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-19 06:25:16.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.856][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-19 06:25:16.858][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-19 06:25:16.859][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-19 06:25:16.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:16.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:16.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:16.864][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-19 06:25:16.867][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.868][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-19 06:25:16.870][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.871][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:16.873][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.874][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.875][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.877][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.878][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:25:16.879][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:16.881][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.882][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-19 06:25:16.884][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:16.885][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.886][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.888][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:16.888][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:16.888][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:16.888][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:25:16.888][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:25:16.889][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:16.890][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.892][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.893][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:16.894][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.896][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.897][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.898][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.900][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:16.901][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:16.902][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.903][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.905][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-19 06:25:16.908][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.909][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:25:16.910][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.912][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:16.913][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.914][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.916][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.917][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.918][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:25:16.920][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:16.921][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.923][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-19 06:25:16.924][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:16.925][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.927][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.928][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:16.928][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:16.928][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:16.928][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-19 06:25:16.928][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-19 06:25:16.929][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:16.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.940][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.941][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:16.943][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.944][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.945][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.946][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.948][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:16.949][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:16.950][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.952][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.954][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-19 06:25:16.956][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.958][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-19 06:25:16.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.960][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:16.962][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.963][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.964][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.966][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.967][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-19 06:25:16.969][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:16.970][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.971][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-19 06:25:16.973][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:16.974][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.976][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.977][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.978][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:16.980][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.981][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.982][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:16.984][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:16.985][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:16.986][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:16.988][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.989][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:16.990][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:16.991][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:16.993][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:16.994][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-19 06:25:16.997][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:16.999][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-19 06:25:17.000][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.001][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:17.003][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.004][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:17.005][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:17.007][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-19 06:25:17.008][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-19 06:25:17.010][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:17.011][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:17.013][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-19 06:25:17.014][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:17.015][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:17.017][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.018][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:17.020][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-19 06:25:17.021][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:17.022][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:17.024][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:17.025][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:17.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:17.028][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:17.029][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:17.030][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:17.032][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:17.033][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:17.035][self$setPropertyValue]
biodb.DEBUG[2025-08-19 06:25:17.037][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:17.038][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.059][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[2025-08-19 06:25:17.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.066][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[2025-08-19 06:25:17.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.072][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[2025-08-19 06:25:17.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.079][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[2025-08-19 06:25:17.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.091][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[2025-08-19 06:25:17.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.151][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-19 06:25:17.153][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-19 06:25:17.155][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-19 06:25:17.158][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-19 06:25:17.160][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:25:17.162][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-19 06:25:17.164][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-19 06:25:17.166][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-19 06:25:17.168][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-19 06:25:17.170][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-19 06:25:17.172][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:25:17.174][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-19 06:25:17.177][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-19 06:25:17.179][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-19 06:25:17.181][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-19 06:25:17.183][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-19 06:25:17.185][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-19 06:25:17.195][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-19 06:25:17.197][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:25:17.199][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-19 06:25:17.202][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-19 06:25:17.204][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-19 06:25:17.206][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-19 06:25:17.208][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-19 06:25:17.211][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-19 06:25:17.213][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-19 06:25:17.215][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-19 06:25:17.217][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-19 06:25:17.219][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-19 06:25:17.221][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-19 06:25:17.223][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-19 06:25:17.225][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-19 06:25:17.227][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-19 06:25:17.230][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-19 06:25:17.232][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-19 06:25:17.234][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-19 06:25:17.236][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-19 06:25:17.238][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-19 06:25:17.240][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-19 06:25:17.242][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-19 06:25:17.244][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-19 06:25:17.246][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-19 06:25:17.248][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-19 06:25:17.251][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-19 06:25:17.253][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-19 06:25:17.255][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-19 06:25:17.257][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-19 06:25:17.259][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-19 06:25:17.261][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-19 06:25:17.263][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-19 06:25:17.265][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-19 06:25:17.267][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-19 06:25:17.269][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-19 06:25:17.271][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-19 06:25:17.273][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-19 06:25:17.275][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-19 06:25:17.278][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-19 06:25:17.280][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-19 06:25:17.282][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-19 06:25:17.284][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-19 06:25:17.286][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-19 06:25:17.288][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-19 06:25:17.290][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-19 06:25:17.292][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-19 06:25:17.294][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-19 06:25:17.296][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-19 06:25:17.298][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:25:17.300][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:25:17.302][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-19 06:25:17.305][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-19 06:25:17.307][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-19 06:25:17.309][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-19 06:25:17.311][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-19 06:25:17.313][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-19 06:25:17.315][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-19 06:25:17.317][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-19 06:25:17.319][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-19 06:25:17.321][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-19 06:25:17.323][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-19 06:25:17.325][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-19 06:25:17.327][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-19 06:25:17.329][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-19 06:25:17.331][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-19 06:25:17.334][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-19 06:25:17.336][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-19 06:25:17.337][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-19 06:25:17.339][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.341][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.342][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[2025-08-19 06:25:17.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.377][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[2025-08-19 06:25:17.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.386][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[2025-08-19 06:25:17.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.413][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[2025-08-19 06:25:17.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.431][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[2025-08-19 06:25:17.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.440][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[2025-08-19 06:25:17.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.485][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[2025-08-19 06:25:17.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-19 06:25:17.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-19 06:25:17.506][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-19 06:25:17.508][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-19 06:25:17.511][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:17.513][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-19 06:25:17.514][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.516][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-19 06:25:17.517][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.519][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-19 06:25:17.520][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.522][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-19 06:25:17.523][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-19 06:25:17.525][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-19 06:25:17.526][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.528][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-19 06:25:17.529][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-19 06:25:17.531][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-19 06:25:17.533][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-19 06:25:17.534][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-19 06:25:17.534][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-19 06:25:17.534][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-19 06:25:17.536][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-19 06:25:17.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:17.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:17.540][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-19 06:25:17.542][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-19 06:25:17.543][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-19 06:25:17.545][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-19 06:25:17.546][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-19 06:25:17.546][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-19 06:25:17.548][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-19 06:25:17.549][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-19 06:25:17.551][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-19 06:25:17.552][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-19 06:25:17.552][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-19 06:25:17.554][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-19 06:25:17.557][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-19 06:25:17.559][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-19 06:25:17.561][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-19 06:25:17.564][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-19 06:25:17.566][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-19 06:25:17.571][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-19 06:25:17.573][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-19 06:25:17.575][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-19 06:25:17.577][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-19 06:25:17.579][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:25:17.580][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-19 06:25:17.583][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-19 06:25:17.584][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-19 06:25:17.586][biodb::testThat]
biodb.INFO [2025-08-19 06:25:17.588][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-08-19 06:25:17.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-19 06:25:17.591][biodb::testThat]
biodb.DEBUG[2025-08-19 06:25:17.595][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-19 06:25:17.600][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:17.603][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-19 06:25:17.605][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:17.607][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-19 06:25:17.612][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-08-19 06:25:17.617][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-19 06:25:17.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-08-19 06:25:17.621][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:17.623][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-08-19 06:25:17.629][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-08-19 06:25:17.631][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-19 06:25:17.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-08-19 06:25:17.636][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-19 06:25:17.642][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-08-19 06:25:17.644][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-19 06:25:17.646][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-19 06:25:17.647][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-19 06:25:17.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-19 06:25:17.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-19 06:25:17.672][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:17.689][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:17.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-19 06:25:17.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-19 06:25:17.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.703][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:17.705][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:17.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-19 06:25:17.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-19 06:25:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-19 06:25:17.721][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-19 06:25:17.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.727][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-19 06:25:17.729][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-19 06:25:17.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.734][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:17.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:17.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.749][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:17.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-19 06:25:17.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.755][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:17.757][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:17.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-19 06:25:17.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-19 06:25:17.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.767][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:17.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:17.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:17.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-19 06:25:17.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.779][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:17.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:17.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-19 06:25:17.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-19 06:25:17.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.792][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:17.794][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:17.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.799][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-19 06:25:17.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-19 06:25:17.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.805][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:17.807][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:17.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.812][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-19 06:25:17.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-19 06:25:17.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:17.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:17.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:17.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:17.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-19 06:25:17.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-19 06:25:17.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-19 06:25:17.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-19 06:25:17.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-19 06:25:17.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-19 06:25:17.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-19 06:25:17.890][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-08-19 06:25:17.897][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-19 06:25:17.899][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-19 06:25:17.901][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-19 06:25:17.902][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-19 06:25:17.904][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-19 06:25:17.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-19 06:25:17.906][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-19 06:25:17.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-19 06:25:17.909][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-19 06:25:17.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 362 ]
> 
> proc.time()
   user  system elapsed 
 24.543  88.741 405.611 

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn1.2730.0805.761
ChebiEntry0.2200.0350.319